code
stringlengths 2
1.05M
| repo_name
stringlengths 5
110
| path
stringlengths 3
922
| language
stringclasses 1
value | license
stringclasses 15
values | size
int64 2
1.05M
|
|---|---|---|---|---|---|
#!/bin/bash
#**********************************************************
#* CATEGORY JARVIS HOME AUTOMTION
#* GROUP RESTART SYSTEM
#* AUTHOR LANCE HAYNIE <[email protected]>
#**********************************************************
#Jarvis Home Automation
#Copyright (C) 2017 Haynie Research & Development
#This program is free software; you can redistribute it and/or modify
#it under the terms of the GNU General Public License as published by
#the Free Software Foundation; either version 2 of the License, or
#(at your option) any later version.
#This program is distributed in the hope that it will be useful,
#but WITHOUT ANY WARRANTY; without even the implied warranty of
#MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
#GNU General Public License for more details.
#You should have received a copy of the GNU General Public License along
#with this program; if not, write to the Free Software Foundation, Inc.,
#51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
sudo shutdown -r now
|
Haynie-Research-and-Development/jarvis
|
scripts/restart_system.sh
|
Shell
|
gpl-2.0
| 1,038 |
#! /bin/sh -e
# tup - A file-based build system
#
# Copyright (C) 2010-2022 Mike Shal <[email protected]>
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 2 as
# published by the Free Software Foundation.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License along
# with this program; if not, write to the Free Software Foundation, Inc.,
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
# Try a rule where we use the output names to drive the foreach
. ./tup.sh
check_no_windows symlink
cat > Tupfile.lua << HERE
binaries = {'ar', 'vi'}
for k, v in pairs(binaries) do
tup.rule('busybox', 'ln -s %f %o', v)
end
HERE
touch busybox
update
tup_dep_exist . 'ln -s busybox ar' . ar
tup_dep_exist . 'ln -s busybox vi' . vi
eotup
|
gittup/tup
|
test/t2074-reverse-rule.sh
|
Shell
|
gpl-2.0
| 1,088 |
#!/usr/bin/env node
(require("../src/apg-conv/apg-conv.js"))();
|
ldthomas/apg-js
|
bin/apg-conv.sh
|
Shell
|
gpl-2.0
| 64 |
#!/bin/ksh
JVM="$JDK_HOME/bin/java $JAVA_RUN_OPTS"
#Operator add_rule Id \"expresion\" ior_file operation < operator.ior
#Operator replace_rule Id \"expresion\" ior_file operation <operator.ior
#$1 $2 "$3" $4 $5
#Operator insert_rule Id Position \"expresion\" ior_file operation<operator.ior
#$1 $2 $3 "$4" $5 $6
if [ $# -gt 0 ]
then
if [ $1 = add_rule ]
then
$JVM es.tid.corba.TIDDistrib.tools.Operator $1 $2 "$3" $4 $5
elif [ $1 = replace_rule ]
then
$JVM es.tid.corba.TIDDistrib.tools.Operator $1 $2 "$3" $4 $5
elif [ $1 = insert_rule ]
then
$JVM es.tid.corba.TIDDistrib.tools.Operator $1 $2 $3 "$4" $5 $6
else
$JVM es.tid.corba.TIDDistrib.tools.Operator $*
fi
else
$JVM es.tid.corba.TIDDistrib.tools.Operator $*
fi
|
AlvaroVega/TIDNotifJ
|
tools/TIDDistrib/Operator.sh
|
Shell
|
gpl-2.0
| 759 |
#! /bin/bash
connectedDev=$(hcitool con 2>/dev/null)
conMac=${connectedDev:20:18}
conMac=$(echo "$conMac" 2>/dev/null|tr -d " " 2>/dev/null)
conname=$(hcitool name "$conMac" 2>/dev/null)
echo "$conname" 2>/dev/null
|
zoff99/ToxBlinkenwall
|
toxblinkenwall/scripts/rpi_zerow/get_bt_connected_name.sh
|
Shell
|
gpl-2.0
| 216 |
#!/bin/bash
#
# Copyright (C) 2017 Google Inc.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License along
# with this program; if not, write to the Free Software Foundation, Inc.,
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
set -eo pipefail
shopt -s nullglob
# if command starts with an option, prepend mysqld
if [ "${1:0:1}" = '-' ]; then
set -- mysqld "$@"
fi
# skip setup if they want an option that stops mysqld
wantHelp=
for arg; do
case "$arg" in
-'?'|--help|--print-defaults|-V|--version)
wantHelp=1
break
;;
esac
done
# usage: file_env VAR [DEFAULT]
# ie: file_env 'XYZ_DB_PASSWORD' 'example'
# (will allow for "$XYZ_DB_PASSWORD_FILE" to fill in the value of
# "$XYZ_DB_PASSWORD" from a file, especially for Docker's secrets feature)
file_env() {
local var="$1"
local fileVar="${var}_FILE"
local def="${2:-}"
if [ "${!var:-}" ] && [ "${!fileVar:-}" ]; then
echo >&2 "error: both $var and $fileVar are set (but are exclusive)"
exit 1
fi
local val="$def"
if [ "${!var:-}" ]; then
val="${!var}"
elif [ "${!fileVar:-}" ]; then
val="$(< "${!fileVar}")"
fi
export "$var"="$val"
unset "$fileVar"
}
_check_config() {
toRun=( "$@" --verbose --help )
if ! errors="$("${toRun[@]}" 2>&1 >/dev/null)"; then
cat >&2 <<-EOM
ERROR: mysqld failed while attempting to check config
command was: "${toRun[*]}"
$errors
EOM
exit 1
fi
}
# Fetch value from server config
# We use mysqld --verbose --help instead of my_print_defaults because the
# latter only show values present in config files, and not server defaults
_get_config() {
local conf="$1"; shift
"$@" --verbose --help --log-bin-index="$(mktemp -u)" 2>/dev/null | awk '$1 == "'"$conf"'" { print $2; exit }'
}
# allow the container to be started with `--user`
if [ "$1" = 'mysqld' -a -z "$wantHelp" -a "$(id -u)" = '0' ]; then
_check_config "$@"
DATADIR="$(_get_config 'datadir' "$@")"
mkdir -p "$DATADIR"
chown -R mysql:mysql "$DATADIR"
exec gosu mysql "$BASH_SOURCE" "$@"
fi
if [ "$1" = 'mysqld' -a -z "$wantHelp" ]; then
# still need to check config, container may have started with --user
_check_config "$@"
# Get config
DATADIR="$(_get_config 'datadir' "$@")"
if [ ! -d "$DATADIR/mysql" ]; then
file_env 'MYSQL_ROOT_PASSWORD'
if [ -z "$MYSQL_ROOT_PASSWORD" -a -z "$MYSQL_ALLOW_EMPTY_PASSWORD" -a -z "$MYSQL_RANDOM_ROOT_PASSWORD" ]; then
echo >&2 'error: database is uninitialized and password option is not specified '
echo >&2 ' You need to specify one of MYSQL_ROOT_PASSWORD, MYSQL_ALLOW_EMPTY_PASSWORD and MYSQL_RANDOM_ROOT_PASSWORD'
exit 1
fi
mkdir -p "$DATADIR"
echo 'Initializing database'
"$@" --initialize-insecure
echo 'Database initialized'
if command -v mysql_ssl_rsa_setup > /dev/null && [ ! -e "$DATADIR/server-key.pem" ]; then
# https://github.com/mysql/mysql-server/blob/23032807537d8dd8ee4ec1c4d40f0633cd4e12f9/packaging/deb-in/extra/mysql-systemd-start#L81-L84
echo 'Initializing certificates'
mysql_ssl_rsa_setup --datadir="$DATADIR"
echo 'Certificates initialized'
fi
SOCKET="$(_get_config 'socket' "$@")"
"$@" --skip-networking --socket="${SOCKET}" &
pid="$!"
mysql=( mysql --protocol=socket -uroot -hlocalhost --socket="${SOCKET}" )
for i in {30..0}; do
if echo 'SELECT 1' | "${mysql[@]}" &> /dev/null; then
break
fi
echo 'MySQL init process in progress...'
sleep 1
done
if [ "$i" = 0 ]; then
echo >&2 'MySQL init process failed.'
exit 1
fi
if [ -z "$MYSQL_INITDB_SKIP_TZINFO" ]; then
# sed is for https://bugs.mysql.com/bug.php?id=20545
mysql_tzinfo_to_sql /usr/share/zoneinfo | sed 's/Local time zone must be set--see zic manual page/FCTY/' | "${mysql[@]}" mysql
fi
if [ ! -z "$MYSQL_RANDOM_ROOT_PASSWORD" ]; then
export MYSQL_ROOT_PASSWORD="$(pwgen -1 32)"
echo "GENERATED ROOT PASSWORD: $MYSQL_ROOT_PASSWORD"
fi
rootCreate=
# default root to listen for connections from anywhere
file_env 'MYSQL_ROOT_HOST' '%'
if [ ! -z "$MYSQL_ROOT_HOST" -a "$MYSQL_ROOT_HOST" != 'localhost' ]; then
# no, we don't care if read finds a terminating character in this heredoc
# https://unix.stackexchange.com/questions/265149/why-is-set-o-errexit-breaking-this-read-heredoc-expression/265151#265151
read -r -d '' rootCreate <<-EOSQL || true
CREATE USER 'root'@'${MYSQL_ROOT_HOST}' IDENTIFIED BY '${MYSQL_ROOT_PASSWORD}' ;
GRANT ALL ON *.* TO 'root'@'${MYSQL_ROOT_HOST}' WITH GRANT OPTION ;
EOSQL
fi
"${mysql[@]}" <<-EOSQL
-- What's done in this file shouldn't be replicated
-- or products like mysql-fabric won't work
SET @@SESSION.SQL_LOG_BIN=0;
DELETE FROM mysql.user WHERE user NOT IN ('mysql.sys', 'mysqlxsys', 'root') OR host NOT IN ('localhost') ;
SET PASSWORD FOR 'root'@'localhost'=PASSWORD('${MYSQL_ROOT_PASSWORD}') ;
GRANT ALL ON *.* TO 'root'@'localhost' WITH GRANT OPTION ;
${rootCreate}
DROP DATABASE IF EXISTS test ;
FLUSH PRIVILEGES ;
EOSQL
if [ ! -z "$MYSQL_ROOT_PASSWORD" ]; then
mysql+=( -p"${MYSQL_ROOT_PASSWORD}" )
fi
file_env 'MYSQL_DATABASE'
if [ "$MYSQL_DATABASE" ]; then
echo "CREATE DATABASE IF NOT EXISTS \`$MYSQL_DATABASE\` ;" | "${mysql[@]}"
mysql+=( "$MYSQL_DATABASE" )
fi
file_env 'MYSQL_USER'
file_env 'MYSQL_PASSWORD'
if [ "$MYSQL_USER" -a "$MYSQL_PASSWORD" ]; then
echo "CREATE USER '$MYSQL_USER'@'%' IDENTIFIED BY '$MYSQL_PASSWORD' ;" | "${mysql[@]}"
if [ "$MYSQL_DATABASE" ]; then
echo "GRANT ALL ON \`$MYSQL_DATABASE\`.* TO '$MYSQL_USER'@'%' ;" | "${mysql[@]}"
fi
echo 'FLUSH PRIVILEGES ;' | "${mysql[@]}"
fi
echo
for f in /docker-entrypoint-initdb.d/*; do
case "$f" in
*.sh) echo "$0: running $f"; . "$f" ;;
*.sql) echo "$0: running $f"; "${mysql[@]}" < "$f"; echo ;;
*.sql.gz) echo "$0: running $f"; gunzip -c "$f" | "${mysql[@]}"; echo ;;
*) echo "$0: ignoring $f" ;;
esac
echo
done
if [ ! -z "$MYSQL_ONETIME_PASSWORD" ]; then
"${mysql[@]}" <<-EOSQL
ALTER USER 'root'@'%' PASSWORD EXPIRE;
EOSQL
fi
if ! kill -s TERM "$pid" || ! wait "$pid"; then
echo >&2 'MySQL init process failed.'
exit 1
fi
echo
echo 'MySQL init process done. Ready for start up.'
echo
fi
fi
exec "$@"
|
GoogleCloudPlatform/mysql-docker
|
5/debian9/5.7/docker-entrypoint.sh
|
Shell
|
gpl-2.0
| 6,774 |
#! /bin/sh -e
# tup - A file-based build system
#
# Copyright (C) 2009-2020 Mike Shal <[email protected]>
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 2 as
# published by the Free Software Foundation.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License along
# with this program; if not, write to the Free Software Foundation, Inc.,
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
# We have a ghost Tuprules.tup node, and then move a file over it. The
# necessary directories should be re-parsed.
. ./tup.sh
check_monitor_supported
monitor
mkdir a
mkdir a/a2
cat > a/a2/Tupfile << HERE
include_rules
: |> echo \$(VAR) |>
HERE
echo 'VAR=3' > Tuprules.tup
echo 'VAR=4' > a/ok.txt
update
tup_dep_exist a Tuprules.tup a a2
tup_object_exist a/a2 'echo 3'
mv a/ok.txt a/Tuprules.tup
update
tup_dep_exist a Tuprules.tup a a2
tup_object_exist a/a2 'echo 4'
eotup
|
ppannuto/tup
|
test/t7030-move-over-ghost2.sh
|
Shell
|
gpl-2.0
| 1,227 |
#!/bin/bash
function displayNumberOfFiles() {
files=$(( $( ls -l | wc -l ) - 1 ))
echo "Number of files in this directory are: $files"
echo ""
}
function displayNumberOfSubdirectories() {
typeset -i subdirectories=0
file * | while
read filename filetype rest
do
if [ $filetype = "directory" ]
then
subdirectories+=1
# echo "directory $subdirectories"
fi
done
echo "Number of Subdirectories in this directory: $subdirectories"
echo ""
}
function displayNumberOfLinesContainingChar() {
char=$1
echo "Enter the filename: \c"
read file
echo "Number of lines in $file containing $char: \c"
grep -c $char $file
echo ""
}
function follow() {
choice=$1
case $choice in
1)
displayNumberOfFiles
showMenu
;;
2)
displayNumberOfSubdirectories
showMenu
;;
3)
charToCount='y'
displayNumberOfLinesContainingChar $charToCount
showMenu
;;
4)
echo "Enter the filename: \c"
read file
head -1 $file
tail -1 $file
showMenu
;;
5)
exit 0
;;
*)
echo "WRONG CHOICE. TRY AGAIN!"
showMenu
;;
esac
}
function showMenu() {
echo "1.Display Number of files."
echo "2.Display Number of Subdirectories."
echo "3.Display Number of lines in a file containing 'y'."
echo "4.Display first and the last line of the file."
echo "5.EXIT"
echo "Enter your Choice"
read choice
follow $choice
}
showMenu
|
itch96/ShellScripts
|
16.MenuFileOp.sh
|
Shell
|
gpl-3.0
| 1,616 |
#! /bin/bash
#$ -cwd -V
#$ -j y
#$ -m e
set -e
res1=$(date +%s.%N) # use to calculate whole run time of the job
echo $'\n'"["`date`"]: Job started."
## Add Modules ########################
module load $8
#######################################
SAMPLE_ID=$1
SAMPLE_PATH=$2
Q=$3
MaxD=$4
REF_BUILD=$5
REF_FILE=$6
BAMFILELIST=$7
GROUP=$9
INDIR="${SAMPLE_PATH}/${SAMPLE_ID}"
SAMVCF="${INDIR}/${SAMPLE_ID}_${GROUP}_SourceBio_Q${Q}_Bcftools13_${REF_BUILD}.vcf"
##Samtools-Bcftools Variant Calling
#samtools mpileup -v -d $MaxD -L $MaxD -q $Q -Q $Q -m 25 -t DP,AD,ADF,ADR,SP,INFO/AD,INFO/ADF,INFO/ADR -r chrM:0-16570 -f ${REF_FILE} -b ${BAMFILELIST} | bcftools call -v -m -f GQ,GP -O v -o $SAMVCF -
# -I no Indels called/SNPs only bcftools w/o '-v' calls at every position
samtools mpileup -vu -d $MaxD -q $Q -Q $Q -I -t DP,AD,ADF,ADR,SP -r chrM -f ${REF_FILE} -b ${BAMFILELIST} | bcftools call -m -f GQ,GP -O v -o $SAMVCF -
#samtools mpileup -vu -d $MaxD -q $Q -Q $Q -I -t DP,DP4,SP -r chrM:0-16570 -f ${REF_FILE} -b ${BAMFILELIST} | bcftools call -v -m -f GQ,GP -O v -o $SAMVCF -
echo $'\n'"["`date`"]: Variant Calling by Samtools-Bcftools is Complete!!"
# runtime calculation
res2=$(date +%s.%N)
dt=$(echo "$res2 - $res1" | bc)
dd=$(echo "$dt/86400" | bc)
dt2=$(echo "$dt-86400*$dd" | bc)
dh=$(echo "$dt2/3600" | bc)
dt3=$(echo "$dt2-3600*$dh" | bc)
dm=$(echo "$dt3/60" | bc)
ds=$(echo "$dt3-60*$dm" | bc)
printf "Total runtime: %d:%02d:%02d:%02.4f\n" $dd $dh $dm $ds
echo "exit status $?"
|
Helgriff/MitoCirco
|
BashScripts/Samtools1-3Bcftools.sh
|
Shell
|
gpl-3.0
| 1,492 |
#!/usr/bin/env bash
if [ "$#" -gt 2 ]; then
echo "Usage: waitForFormat device_name [gpt|msdos]"
exit 1
fi
LABEL=gpt
case "$2" in
msdos)
LABEL=msdos
;;
*)
LABEL=gpt
;;
esac
while true; do
if [ `fdisk -l /dev/$1 | wc -l 2>/dev/null` -gt 0 ]; then
parted -a optimal -s -- /dev/$1 mklabel $LABEL mkpart primary 0% 100%;
exit 0
fi
done
|
EWS-Network/ews-cf-templates
|
compute/ebs/scripts/waitForFormat.sh
|
Shell
|
gpl-3.0
| 365 |
#!/bin/bash
#
# This file is part of Schumix.
#
# Copyright (C) 2010-2013 Megax <http://megax.yeahunter.hu/>
# Copyright (C) 2013-2015 Schumix Team <http://schumix.eu/>
#
# Schumix is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# Schumix is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with Schumix. If not, see <http://www.gnu.org/licenses/>.
#
main () {
for f in $(find -iname "*.am" | grep -v "./_ReSharper" | grep -v "/obj/" | grep -v "./External")
do
file_update $f
done
configure_ac_update
makefile_am_update
}
configure_ac_update () {
f=configure.ac
echo "Update $f"
find $f -type f -exec sed -i 's/External\/YamlDotNet\/YamlDotNet\/Makefile/External\/YamlDotNet\/YamlDotNet\/Makefile\nPo\/Makefile/g' {} \;
}
makefile_am_update () {
f=Makefile.am
echo "Update $f"
find $f -type f -exec sed -i 's/External\/YamlDotNet\/YamlDotNet /External\/YamlDotNet\/YamlDotNet Po /g' {} \;
}
file_update () {
f=$1
echo "Update file: $f"
# IronPython.Modules.dll
find $f -type f -exec sed -i 's/..\/..\/..\/..\/IronPython.Modules/..\/..\/Dependencies\/IronPython.Modules.dll/g' {} \;
find $f -type f -exec sed -i 's/..\/..\/IronPython.Modules/Dependencies\/IronPython.Modules.dll/g' {} \;
# IronPython.dll
find $f -type f -exec sed -i 's/..\/..\/..\/..\/IronPython/..\/..\/Dependencies\/IronPython.dll/g' {} \;
find $f -type f -exec sed -i 's/..\/..\/IronPython/Dependencies\/IronPython.dll/g' {} \;
# Microsoft.Dynamic.dll
find $f -type f -exec sed -i 's/..\/..\/..\/..\/Microsoft.Dynamic/..\/..\/Dependencies\/Microsoft.Dynamic.dll/g' {} \;
find $f -type f -exec sed -i 's/..\/..\/Microsoft.Dynamic/Dependencies\/Microsoft.Dynamic.dll/g' {} \;
# Microsoft.Scripting.Metadata.dll
find $f -type f -exec sed -i 's/..\/..\/..\/..\/Microsoft.Scripting.Metadata/..\/..\/Dependencies\/Microsoft.Scripting.Metadata.dll/g' {} \;
find $f -type f -exec sed -i 's/..\/..\/Microsoft.Scripting.Metadata/Dependencies\/Microsoft.Scripting.Metadata.dll/g' {} \;
# Microsoft.Scripting.dll
find $f -type f -exec sed -i 's/..\/..\/..\/..\/Microsoft.Scripting/..\/..\/Dependencies\/Microsoft.Scripting.dll/g' {} \;
find $f -type f -exec sed -i 's/..\/..\/Microsoft.Scripting/Dependencies\/Microsoft.Scripting.dll/g' {} \;
}
main
|
Schumix/Schumix2
|
fixmakefile.sh
|
Shell
|
gpl-3.0
| 2,726 |
#!/bin/bash
g++-4.9 -std=c++11 $1.cpp -I../../.. -I../../../src/include -DNDEBUG -O3 -DZNN_CUBE_POOL_LOCKFREE -DZNN_USE_FLOATS -lpthread -lfftw3f -ljemalloc -o $1 -DZNN_DONT_CACHE_FFTS
|
seung-lab/znn-release
|
src/cpp/measurements/make_g++_mac.sh
|
Shell
|
gpl-3.0
| 185 |
#!/bin/bash
#
# Copyright (C) 2017.
# Author: Jesús Manuel Mager Hois
# e-mail: <[email protected]>
# Project website: http://turing.iimas.unam.mx/wix/
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
####################################
# Configuration variables.
# Substitute the path to the tools
####################################
work="$HOME/wixes"
base="$work/smtwixes"
moses="$HOME/mosesdecoder"
tereval=$moses/tools/ter/ter.jar
wareval=$moses/tools/wer/wer.py
wixnlp="$work/wixnlp"
corpus="$work/wixarikacorpora"
europarl="$work/europarl"
morph=0
seg=0
tranlate=0
hier=0
while getopts "h?mtesi:" opt; do
case "$opt" in
h|\?)
echo "evalmodel.sh [--morph | --moprh | --tags]"
echo " Default --nomoprh"
exit 0
;;
m)
morph=1
;;
s)
seg=1
;;
i)
hier=1
;;
t)
tags=1
;;
esac
done
shift $((OPTIND-1))
[ "$1" = "--" ] && shift
cp $corpus/testset.wixes $base/corpus/test.wixes
echo "* Split test corpus"
python3 $wixnlp/tools/sep.py $base/corpus/test
echo "* Normalize test corpus"
python3 $wixnlp/normwix.py -a $base/corpus/test.wix $base/corpus/test.norm.wix
$moses/scripts/tokenizer/tokenizer.perl -l es < $base/corpus/test.es > $base/testing/test.tokens.es -threads 8
tr '[:upper:]' '[:lower:]' < $base/testing/test.tokens.es > $base/testing/test.norm.es
cp $base/testing/test.norm.es $base/testing/test.tokens.es
echo "##### Translate..."
if (( morph == 0 && seg == 0 && hier == 0))
then
echo "No morphological translation"
echo "Translating..."
$moses/bin/moses \
-f $base/wixsinmorph/model/moses.ini \
< $base/corpus/test.norm.wix \
> $base/testing/test.hyp.es \
cat $base/testing/test.hyp.es
$moses/bin/moses \
-f $base/eswixsinmorph/model/moses.ini \
< $base/testing/test.tokens.es\
> $base/testing/test.hyp.wix
#cat $base/testing/test.hyp.wix
fi
if (( morph == 0 && seg == 1 && hier == 0))
then
echo "With improved morphological translation"
echo "Translating..."
python3 seg.py
$moses/bin/moses \
-f $base/wixeswixnlp/model/moses.ini \
< $base/corpus/test.seg.wix\
> $base/testing/test.hyp.es \
$moses/bin/moses \
-f $base/eswixwixnlp/model/moses.ini \
< $base/testing/test.tokens.es\
> $base/testing/test.hyp.wix
fi
if (( morph == 1 && seg == 0 && hier == 0))
then
echo "Morphological Translation"
echo "Translating..."
$base/bin/segment.py -m $base/corpus/model.morph.bin -i $base/corpus/test.norm.wix -o $base/corpus/test.seg.wix
$moses/bin/moses \
-f $base/wixeswithmorph/model/moses.ini \
< $base/corpus/test.seg.wix \
> $base/testing/test.hyp.es \
$moses/bin/moses \
-f $base/eswixwithmorph/model/moses.ini \
< $base/testing/test.tokens.es\
> $base/testing/test.hyp.wix
fi
if (( morph == 0 && seg == 0 && hier == 1))
then
echo "Morphological Hierarchical Translation"
python3 seg.py
$moses/bin/moses \
-f $base/wixeshier/model/moses.ini \
< $base/corpus/test.seg.wix \
> $base/testing/test.hyp.es \
$moses/bin/moses \
-f $base/eswixhier/model/moses.ini \
< $base/testing/test.tokens.es\
> $base/testing/test.hyp.wix
fi
echo "##### Evaluation"
#corpus/wixmorph.py corpus/eval/prueba.norm.wix corpus/train.wix.morph.bin > corpus/eval/prueba.morph.wix
#morfessor-segment -L corpus/train.wix.morph.model corpus/eval/prueba.endl.wix -o corpus/eval/prueba.morph.wix
#tr '\n' ' ' < corpus/eval/prueba.morph.wix > corpus/eval/prueba.morph.endl.wix
#tr '@@@' '\n' < corpus/eval/prueba.morph.endl.wix > corpus/eval/prueba.morph.wix
#sed -i '/^[[:space:]]*$/d' corpus/eval/prueba.morph.wix
if (( morph == 0))
then
echo "#TER"
awk '{print $0, "(", NR, ")"}' $base/testing/test.hyp.es > $base/testing/test.hyp.ter.es
awk '{print $0, "(", NR, ")"}' $base/testing/test.tokens.es > $base/testing/test.ter.es
java -jar $tereval -r $base/testing/test.ter.es -h $base/testing/test.hyp.ter.es
#echo "#WER"
#python3 $wereval $base/corpus/test.es $base/testing/test.hyp.es
echo "#TER"
awk '{print $0, "(", NR, ")"}' $base/testing/test.hyp.wix > $base/testing/test.hyp.ter.wix
awk '{print $0, "(", NR, ")"}' $base/corpus/test.wix > $base/testing/test.ter.wix
java -jar $tereval -r $base/testing/test.ter.wix -h $base/testing/test.hyp.ter.wix
#echo "#WER"
echo "#BLEU"
$moses/scripts/generic/multi-bleu.perl -lc $base/testing/test.tokens.es < $base/testing/test.hyp.es
$moses/scripts/generic/multi-bleu.perl -lc $base/corpus/test.norm.wix < $base/testing/test.hyp.wix
else
echo '######## Morhological transaltion'
echo "#TER"
awk '{print $0, "(", NR, ")"}' $base/testing/test.hyp.es > $base/testing/test.hyp.ter.es
awk '{print $0, "(", NR, ")"}' $base/testing/test.tokens.es > $base/testing/test.ter.es
java -jar $tereval -r $base/testing/test.ter.es -h $base/testing/test.hyp.ter.es
awk '{print $0, "(", NR, ")"}' $base/testing/test.hyp.wix > $base/testing/test.hyp.ter.wix
awk '{print $0, "(", NR, ")"}' $base/corpus/test.seg.wix > $base/testing/test.seg.ter.wix
java -jar $tereval -N -r $base/testing/test.seg.ter.wix -h $base/testing/test.hyp.ter.wix
echo "#BLEU"
$moses/scripts/generic/multi-bleu.perl -lc $base/testing/test.tokens.es < $base/testing/test.hyp.es
$moses/scripts/generic/multi-bleu.perl -lc $base/corpus/test.seg.wix < $base/testing/test.hyp.wix
fi
|
pywirrarika/smtwixes
|
evalmodels.sh
|
Shell
|
gpl-3.0
| 6,415 |
#!/bin/bash
source /opt/gc2/bin/activate
python /opt/gc2/gc2smwdaemon.py
|
JosefAssad/SeMaWi
|
scripts/syncgc2.sh
|
Shell
|
gpl-3.0
| 74 |
#!/usr/bin/env bash
. ./setdir.sh
NAME=nfi
TYPE_PARAMS="--marcVersion FENNICA --fixAlephseq --marcxml --emptyLargeCollectors"
MARC_DIR=${BASE_INPUT_DIR}/nfi
MASK=fennica.mrcx
. ./common-script
echo "DONE"
exit 0
|
pkiraly/metadata-qa-marc
|
catalogues/nfi.sh
|
Shell
|
gpl-3.0
| 215 |
#!/bin/bash
hemin=0.001
hemax=0.007
hestep=0.0005
himin=0.002
himax=0.008
histep=0.0005
for he in $(seq $hemin $hestep $hemax); do
for hi in $(seq $himin $histep $himax); do
#max=`echo $m + $pstep | bc`
program="python RUM_Detektor_2Npp.py -he $he -hi $hi"
echo $program
bsub -q Batch24 $program
done
done
|
TiKunze/CanMics
|
src/python/01_SingleChannel/2pop/Npp/RUM_Detect_2Npp_batch.sh
|
Shell
|
gpl-3.0
| 347 |
#!/bin/bash
#Script looks at process name and kill it.
#Delcare Variables
PNumber="$(ps -f -u $USER | grep -i $1 | awk 'NR==1{print $2}')"
#Process number
#echo $PNumber
if [[ -z "$PNumber" ]]; then
#statements
echo "No processes found, try another process name"
break
else
#statements
echo "########################"
echo "I found this process number " $PNumber " and belongs to " $USER
echo "########################"
fi
#
#Empieza menu con select
#
select ACT in Kill-it Show-it Quit; do
if [[ -n "$ACT" ]]; then
if [[ "$ACT" == "Kill-it" ]]; then
echo "Para evitar errores, te muestro la informacion del proceso,"
ps -f --pid $PNumber
echo "..."
echo Mantando el proceso $PNumber
sleep 2
elif [[ "$ACT" == "Show-it" ]]; then
echo Mostrando el proceso $PNumber
ps -f --pid $PNumber
echo Seguro que deseas Matar este proceso
read ACT
echo $ACT
elif [[ "$ACT" == "Quit" ]]; then
#statements
echo Adios
sleep 2
break
fi
else
echo Necesito una respuesta
fi
done
#LinuxL263
#EOF
|
mgvv/learning-how-to-code
|
Learning_Bash_Advanced/mi_cominenzo/restar_process.sh
|
Shell
|
gpl-3.0
| 1,140 |
#!/bin/bash
XMIN=0.005
for ORD in NLO
#for ORD in LO NLO
do
#for Q2 in 1.0 2.0 4.0 10.0 20.0 100.0 200.0 1000.0
#for Q2 in 1.0 2.0 10.0 100.0
#for Q2 in 1.0
#for Q2 in 4.0
for Q2 in 10.0
#for Q2 in 100.0
#for Q2 in 10.0
do
#for iflav in -5 -4 -3 -2 -1 0 1 2 3 4 5
#for iflav in -4 -3 -2 -1 0 1 2 3 4
#for iflav in 0
#for iflav in -3 -2 -1 0 1 2 3 4
#for iflav in -3 -2 -1 0 1 2 3
#for iflav in -2 -1 0 1 2 3
#for iflav in -3 -2 -1 3
#for iflav in 1
for iflav in -2
do
#cat <<EOF | ./plotDST --sumplot --Q2=${Q2} --order=${ORD} \
#--DSSV --xmin=${XMIN} --gluon=0.8 --u=0.4 --d=0.8 --suffix=eps
#../browser/distout${ORD}DSSV_org.dat DSSV_evo
#../browser/distout${ORD}DSSV_grid.dat DSSV_grid
#EOF
#../browser/distout${ORD}DSSV_imazu.dat DSSV_imazu
#cat <<EOF | ./plotDST --sumplot --Q2=${Q2} --order=${ORD} \
#--MRST --xmin=${XMIN} --gluon=0.1 --skips-bar
#../browser/distout${ORD}MRST.dat MRST_evo
#../browser/distout${ORD}MRST_grid.dat MRST_grid
#EOF
#--suffix=eps
#cat <<EOF | ./plotDST --sumplot --Q2=${Q2} --order=${ORD} \
#--Kretzer --HAD=1 --xmin=${XMIN} --suffix=eps
#../browser/distout${ORD}KretzerFF_kret.dat Kretzer_evo
#../browser/distout${ORD}KretzerFF_grid.dat Kretzer_grid
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
#--FFK --xmin=${XMIN}
#../browser/distout${ORD}FFK_werr_${Q2}.dat My_Calculation
#../browser/distout${ORD}KretzerFFK_kret.dat Kretzer00
#../browser/distout${ORD}DSSFFK.dat DSS07
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
#--FFP --xmin=${XMIN}
#../browser/distout${ORD}FFP.dat My_Calculation
#../browser/distout${ORD}KretzerFFP_kret.dat Kretzer00
#../browser/distout${ORD}DSSFFP.dat DSS07
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --DSSV --xmin=${XMIN} --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001
#../browser/distout${ORD}DSSV_werr_kret.dat My_Calculation
#../browser/distoutNLOGRSV00.dat GRSV00
#../browser/distout${ORD}DSSV.dat DSSV08
#EOF
# --ymax=0.3
# --ymax=0.05 --ymin=-0.05
# --scale
#../browser/distout${ORD}DSSV_r0.5_kret.dat rescale_0.5
#../browser/distout${ORD}DSSV_r2.0_kret.dat rescale_2.0
#../browser/distout${ORD}DSSV_kret.dat My_Calculation
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --DSSV --xmin=${XMIN} --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001 --scale
#../browser/distout${ORD}DSSV_werr_kret.dat My_Calculation
#../browser/distout${ORD}DSSV_r0.5_kret.dat rescale_0.5
#../browser/distout${ORD}DSSV_r2.0_kret.dat rescale_2.0
#../browser/distoutNLOGRSV00.dat GRSV00
#../browser/distout${ORD}DSSV.dat DSSV08
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --DSSV --xmin=${XMIN} --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001
#../browser/distout${ORD}DSSV_werr_kret.dat My_Calculation
#../browser/distout${ORD}DSSV_r0.5_kret.dat rescale_0.5
#../browser/distout${ORD}DSSV_r2.0_kret.dat rescale_2.0
#EOF
# --ymax=0.3
# --ymax=0.05 --ymin=-0.05
# --scale
#../browser/distout${ORD}DSSV_r0.5_kret.dat rescale_0.5
#../browser/distout${ORD}DSSV_r2.0_kret.dat rescale_2.0
#../browser/distout${ORD}DSSV_kret.dat My_Calculation
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --DSSV --xmin=${XMIN} --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001 \
# --nolegend --noxtitle --noytitle
#../browser/distout${ORD}DSSV_werr_kret.dat My_Analysis
#../browser/distoutNLOGRSV00.dat GRSV00
#../browser/distout${ORD}DSSV.dat DSSV08
#EOF
# --shade1=3002 --shade2=3001 \
# --shade1=3002 --shade2=3001 --ymax=0.05 --ymin=-0.05 \
cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
--DSSV --xmin=${XMIN} --fill --color1=2 --color2=1 \
--setLC2=1 --setLC4=4 --setLC5=1 --shade1=3001 --shade2=3002 --scale \
--addflegend1="Stat. Err. (1#sigma)" \
--addflegend2="Syst. Err. (FF)" \
--noautolegend2 --scaleLG1 \
--nolegend --noxtitle --noytitle --setxTick=0.07 --setyTick=0.05 \
--xlabelsize=0.05 --ylabelsize=0.045 \
--zeroline --frameWidth=1 \
--ymax=0.035 --ymin=-0.045
../browser/distout${ORD}DSSV_werr_kret.dat Present_Analysis
../browser/distout${ORD}DSSV_FF_wg_scale1.dat ''
../browser/distout${ORD}DSSV_FF_wg_scale2.dat ''
EOF
#../browser/distoutNLOGRSV00.dat GRSV00
#../browser/distout${ORD}DSSV.dat DSSV08
# d-bar
# --ymax=0.035 --ymin=-0.045
# u
# --ymax=0.38 --ymin=-0.04
# w/ legend
# --noxtitle --noytitle --setxTick=0.07 --setyTick=0.05 \
# w/o legend
# --nolegend --noxtitle --noytitle --setxTick=0.07 --setyTick=0.05 \
#--flegend2 \
#Syst._Err._(FF)
#--setLC3=1 --setLC2=4 \
#--ymax=0.05 --ymin=-0.05
#--nolegend --noxtitle --noytitle
#--shade2=3001 \
#--scale \
#../browser/distout${ORD}DSSV_FF_wg_scale1.dat ''
#../browser/distout${ORD}DSSV_FF_wg_scale2.dat ''
#../browser/distout${ORD}DSSV_FF_scale1.dat ''
#../browser/distout${ORD}DSSV_FF_scale2.dat ''
# --shade1=3002 --shade2=3001 --ymax=0.05 --ymin=-0.05 \
# --shade1=3002 --shade2=3001 \
#../browser/distout${ORD}DSSV_FF.dat My_Calc_FF
#../browser/distout${ORD}DSSV_DSSFF_hfree.dat My_Calc_DSSFF
#../browser/distout${ORD}DSSV_KREFF_hfree.dat My_Calc_KREFF
#../browser/distout${ORD}DSSV_FF_hfree.dat My_Calc_FF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --KretzerFF --xmin=${XMIN} --ymax=1.2 --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001
#../browser/distout${ORD}FF_werr.dat My_Calculation
#../browser/distout${ORD}KretzerFF_kret.dat Kretzer00
#../browser/distout${ORD}DSSFF.dat DSS07
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --KretzerFF --xmin=${XMIN} --ymax=1.2 --fill --color1=2 --color2=1 \
# --shade1=3001 --shade2=3002 --scale
#../browser/distout${ORD}FF_werr.dat My_Calculation
#../browser/distout${ORD}FF_r0.5.dat rescale_0.5
#../browser/distout${ORD}FF_r1.5.dat rescale_2.0
#../browser/distout${ORD}KretzerFF_kret.dat Kretzer00
#../browser/distout${ORD}DSSFF.dat DSS07
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --KretzerFF --xmin=${XMIN} --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001
#../browser/distout${ORD}FFK_werr.dat My_Calculation
#../browser/distout${ORD}KretzerFFK_kret.dat Kretzer00
#../browser/distout${ORD}DSSFFK.dat DSS07
#EOF
#../browser/distout${ORD}FFK_r0.5.dat rescale_0.5
#../browser/distout${ORD}FFK_r1.5.dat rescale_2.0
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --KretzerFF --xmin=${XMIN} --fill --color1=2 --color2=1 \
# --shade1=3002 --shade2=3001
#../browser/distout${ORD}FFP_werr.dat My_Calculation
#../browser/distout${ORD}KretzerFFP_kret.dat Kretzer00
#../browser/distout${ORD}DSSFFP.dat DSS07
#EOF
#../browser/distout${ORD}FFP_r0.5.dat rescale_0.5
#../browser/distout${ORD}FFP_r1.5.dat rescale_2.0
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --KretzerFF --xmin=${XMIN} --fill --color1=2 --color2=1 --ymax=1.2 \
# --shade1=3002 --shade2=3001
#../browser/distout${ORD}hadronFF_werr.dat My_Calculation
#../browser/distout${ORD}KretzerhadronFF_kret.dat Kretzer00
#../browser/distout${ORD}DSShadronFF.dat DSS07
#EOF
#--ymax=2.0 \
#../browser/distout${ORD}hadronFF.dat My_Calculation
#../browser/distout${ORD}FF_werr.dat My_Calculation
#../browser/distout${ORD}FF_r0.5.dat rescale_0.5
#../browser/distout${ORD}FF_r1.5.dat rescale_1.5
#../browser/distout${ORD}KretzerFF_kret.dat Kretzer00
#../browser/distout${ORD}DSSFF.dat DSS07
#../browser/distout${ORD}FF_r2.0.dat rescale_2.0
#../browser/distout${ORD}KretzerFF_werr.dat My_Calculation
#../browser/distout${ORD}KretzerFF_r0.5.dat rescale_0.5
#../browser/distout${ORD}KretzerFF_r2.0.dat rescale_2.0
#../browser/distout${ORD}FF_werr.dat My_Calculation
#../browser/distout${ORD}FF_r0.5.dat rescale_0.5
#../browser/distout${ORD}FF_r2.0.dat rescale_2.0
#cat <<EOF | ./plotDST --sumplot --Q2=${Q2} --order=${ORD} \
#--Kretzer --HAD=1 --xmin=${XMIN}
#../browser/distout${ORD}KretzerFF_kret.dat Kretzer_evo
#../browser/distout${ORD}KretzerFF_grid.dat Kretzer_grid
#EOF
#cat <<EOF | ./plotDST --sumplot --Q2=${Q2} --order=${ORD} \
#--DSSV --xmin=${XMIN} --gluon=0.8 --u=0.4 --d=0.8
#../browser/distout${ORD}DSSV.dat DSSV_evo
#../browser/distout${ORD}DSSV_grid.dat DSSV_grid
#EOF
#cat <<EOF | ./plotDST --sumplot --Q2=${Q2} --order=${ORD} \
#--MRST --xmin=${XMIN} --gluon=0.1
#../browser/distout${ORD}MRST.dat MRST_evo
#../browser/distout${ORD}MRST_grid.dat MRST_grid
#EOF
#cat <<EOF | ./plotDST --flavor=${iflav} --Q2=${Q2} --order=${ORD} \
# --FF
#../browser/distout${ORD}KretzerFFK_grid.dat Kretzer_grid
#../browser/distout${ORD}KretzerFFK_kret.dat Kretzer_evo
#../browser/distout${ORD}KretzerFFK.dat Kretzer_fit
#EOF
done
done
done
# MRST
#--MRST
#../browser/distout${ORD}MRST.dat MRST_evo
#../browser/distout${ORD}MRST_grid.dat MRST_grid
# DSSV
#--
#../browser/distout${ORD}DSSV.dat DSSV_evo
#../browser/distout${ORD}DSSV_grid.dat DSSV_grid
# Kretzer
# --FF
#../browser/distout${ORD}KretzerFF_werr.dat Kretzer_fit
#../browser/distout${ORD}KretzerFF_r0.25.dat Kretzer_fit_0.25
#../browser/distout${ORD}KretzerFF_r4.dat Kretzer_fit_4.0
#../browser/distout${ORD}KretzerFF_kret.dat Kretzer_evo
#../browser/distout${ORD}KretzerFF_grid.dat Kretzer_grid
#../browser/distout${ORD}KretzerFF.dat Kretzer_fit
#DSSFF
#../browser/distout${ORD}DSSFF.dat DSS_evo
# Kobayashi
# --FF
#/home/ykobayashi/QCD/user_program/s_free.dat S_Free
#/home/ykobayashi/QCD/user_program/Kretzer.dat Kretzer
#Our Fit
#../browser/distout${ORD}FF.dat Our_Fit
|
miyachi-yu/Mellin
|
plotter/DSTplot.sh
|
Shell
|
gpl-3.0
| 9,490 |
#!/bin/bash
pushd test > /dev/null 2>&1
python test_check_datafiles.py
[ $? -ne 0 ] && exit 1
python test_size_to_int.py
[ $? -ne 0 ] && exit 1
popd test > /dev/null 2>&1
|
dveeden/innodb-space
|
test/run_all.sh
|
Shell
|
gpl-3.0
| 174 |
#!/bin/bash
CPU_FAMILY=$(grep "family" /proc/cpuinfo | sort -u | rev | cut -d ' ' -f1 | rev)
CPU_MODEL=$(grep "model" /proc/cpuinfo | grep -v "name" | sort -u | rev | cut -d ' ' -f1 | rev)
CPU_MODELNAME=$(grep "model name" /proc/cpuinfo | sort -u | cut -d ':' -f2 | xargs)
./startjob.py -M ${PBS_NODEFILE} -j ${PBS_JOBID} -f walltime=${PBS_WALLTIME} -f jobname=${PBS_JOBNAME} -f queue=${PBS_QUEUE} -f march=${CPU_FAMILY}_${CPU_MODEL} -f cpuname="${CPU_MODELNAME}"
|
RRZE-HPC/LMS
|
midware/influxdbrouter/examples/startPBSjob.sh
|
Shell
|
gpl-3.0
| 468 |
#!/bin/bash
set -eu
## A testing script to run every gold solution case in parallel.
## Failing test case names are displayed after all have finished.
## Any flags, e.g. --use-system-epsilon, will be propagated.
# Used to build and report failed cases
tempfile() { tempprefix=$(basename "$0"); mktemp "/tmp/${tempprefix}.XXXXXX"; }
FAILURES=$(tempfile)
SUCCESSES=$(tempfile)
trap 'rm -f "$SUCCESSES" "$FAILURES"' EXIT
# Default arguments to pass to scripts whenever non provided by user
defaultargs=--use-system-epsilon
# Scripts to test are every subdirectory with a check.sh
SCRIPTDIR="$( cd "$( echo "${BASH_SOURCE[0]%/*}" )"; pwd )"
for script in "$SCRIPTDIR"/*/check.sh
do
( "$SCRIPTDIR/neno" "$script" "${@-$defaultargs}" \
&& echo "$script" "${@-$defaultargs}" >> "$SUCCESSES" \
|| echo "$script" "${@-$defaultargs}" >> "$FAILURES" ) &
done
# Wait for all tests to finish
wait
# Output successes and failures
if test $# -lt 1; then
echo "The following default options were provided to each case:"
else
echo "The following options were provided to each case:"
fi
declare -i i=1
for arg in "${@-$defaultargs}"; do
printf $'%6d %s\n' "$i" "$arg"
i+=1
done
if test -s "$SUCCESSES"; then
echo 'Successful cases were as follows: '
sort "$SUCCESSES" | nl
fi
if test -s "$FAILURES"; then
echo 'Failed cases were as follows: '
sort "$FAILURES" | nl
fi
# Return success whenever $FAILURES is empty
! test -s "$FAILURES"
|
RhysU/suzerain
|
apps/perfect/manual.gold/all.sh
|
Shell
|
gpl-3.0
| 1,484 |
#!/bin/bash
set -e
pegasus_lite_version_major="4"
pegasus_lite_version_minor="7"
pegasus_lite_version_patch="0"
pegasus_lite_enforce_strict_wp_check="true"
pegasus_lite_version_allow_wp_auto_download="true"
. pegasus-lite-common.sh
pegasus_lite_init
# cleanup in case of failures
trap pegasus_lite_signal_int INT
trap pegasus_lite_signal_term TERM
trap pegasus_lite_exit EXIT
echo -e "\n################################ Setting up workdir ################################" 1>&2
# work dir
export pegasus_lite_work_dir=$PWD
pegasus_lite_setup_work_dir
echo -e "\n###################### figuring out the worker package to use ######################" 1>&2
# figure out the worker package to use
pegasus_lite_worker_package
echo -e "\n##################### setting the xbit for executables staged #####################" 1>&2
# set the xbit for any executables staged
/bin/chmod +x example_workflow-terminate_0-1.0
echo -e "\n############################# executing the user tasks #############################" 1>&2
# execute the tasks
set +e
pegasus-kickstart -n example_workflow::terminate_0:1.0 -N ID0000016 -R condorpool -L example_workflow -T 2016-10-24T20:54:16+00:00 ./example_workflow-terminate_0-1.0
job_ec=$?
set -e
|
elainenaomi/sciwonc-dataflow-examples
|
dissertation2017/Experiment 1A/logs/w-08_0/20161024T205417+0000/00/00/terminate_0_ID0000016.sh
|
Shell
|
gpl-3.0
| 1,237 |
#! /bin/bash
# installs Grafana; it does a arch check to determine the proper .deb file to be used
echo "************************************"
echo "*******Installing Grafana***********"
echo "************************************"
. /etc/environment
LOCAL_DEB=''
case `uname -m` in
x86_64)
echo 'x86_64'
LOCAL_DEB="$PI_GARDEN_ROOT/installers/grafana/grafana_4.1.2-1486989747_amd64.deb"
;;
armv7l)
echo 'armv7 (raspberry)'
LOCAL_DEB="$PI_GARDEN_ROOT/installers/grafana/grafana_4.1.2-1487023783_armhf.deb"
;;
*)
echo 'Unknown architecture. Installer available only for x86_64 and armv7 (raspberry)'
exit 1
;;
esac
dpkg -i $LOCAL_DEB
apt-get update
apt-get -fy install
sed -i "s/;http_port = 3000/http_port = 3002/g" /etc/grafana/grafana.ini
systemctl daemon-reload
systemctl start grafana-server
systemctl enable grafana-server.service
|
petre2dor/piGarden
|
scripts/updates/update-5.sh
|
Shell
|
gpl-3.0
| 921 |
#! /bin/bash
## Example workflows using EAGLE
CPU=8
## -- Germline Variant Calling --
# Directly after variant calling, run eagle to calculate variant log likelihood ratios
eagle -t $CPU -v variants.vcf -a align.bam -r reference.fa > eagle.txt
# Filter variants based on eagle output
python scripts/compile_likelihoods.py -p eagle.txt -minlr 5 -minaf 0.3 -mindepth 10 -seen > eagle.filter.txt
# Filter the VCF and add eagle score as an annotation
python scripts/combine_vcf_eagle.py -v variants.vcf -e eagle.filter.txt > variants.eagle.filter.vcf
## -- Somatic Variant Calling --
# Run variant calling on tumor samples,
# then run eagle to calculate log likelihood ratios for both normal and tumor samples
eagle -t $CPU -v tumor.vcf -a tumor.bam -r reference.fa > tumor.txt
eagle -t $CPU -v tumor.vcf -a normal.bam -r reference.fa > normal.txt
# Filter variants based on eagle outputs, where positive sample is tumor and negative sample is normal
python scripts/compile_likelihoods.py -p tumor.txt -n normal.txt -minlr 5 -minaf 0.05 -maxlr -2 -maxaf 0.04 -mindepth 10 -seen > somatic.filter.txt
# Filter the VCF and add eagle score as an annotation
python scripts/combine_vcf_eagle.py -v tumor.vcf -e somatic.filter.txt > variants.somatic.vcf
## -- Trio De Novo Variant Calling --
# Run variant calling on each of child and parents separately, then make a union vcf
python ~/scripts/tablize.py -i 0-4 child.vcf father.vcf mother.vcf | cut -f 1-5 > union.vcf
# Add headers to union.vcf [optional]
grep '^#' child.vcf | cat - union.vcf > tmp && mv tmp union.vcf
# then run eagle to calculate log likelihood ratios for both all samples using union.vcf
eagle -t $CPU -v union.vcf -a child.bam -r reference.fa > child.txt
eagle -t $CPU -v union.vcf -a father.bam -r reference.fa > father.txt
eagle -t $CPU -v union.vcf -a mother.bam -r reference.fa > mother.txt
# Filter variants based on eagle outputs, where positive sample is child and negative sample is parent
python scripts/compile_likelihoods.py -p child.txt -n father.txt -minlr 5 -minaf 0.25 -maxlr -2 -maxaf 0.04 -mindepth 10 -seen > child.vs.father.txt
python scripts/compile_likelihoods.py -p child.txt -n mother.txt -minlr 5 -minaf 0.25 -maxlr -2 -maxaf 0.04 -mindepth 10 -seen > child.vs.mother.txt
# Get the variants which are present only in the child
python scripts/tablize.py -a -i 0-7 child.vs.father.txt child.vs.mother.txt > child.vs.parents.txt
# Filter the VCF and add eagle score as an annotation
python scripts/combine_vcf_eagle.py -v child.vcf -e child.vs.parents.txt > child.denovo.vcf
## -- Read Classification for RNA-Seq expression quantification with homeologs --
## Requires LAST (http://last.cbrc.jp/)
## Align the sample data to each origin specific reference separately
## From origin specific transcripts in an allopolyploid, find homeologs and their genotype differences
lastdb -uNEAR -R01 A_origin A_transcripts.fa
lastdb -uNEAR -R01 B_origin B_transcripts.fa
lastal A_origin -P$CPU B_transcripts.fa | last-map-probs -m 0.49 > A_origin.maf
lastal B_origin -P$CPU A_transcripts.fa | last-map-probs -m 0.49 > B_origin.maf
# [Note] check to make sure your transcripts are based on exons or CDS in the annotation. If CDS then change below, -f exon to -f CDS
python scripts/homeolog_genotypes.py -f exon -o Ref_A -g annotation_A.gtf A_origin.maf B_origin.maf
python scripts/homeolog_genotypes.py -f exon -o Ref_B -g annotation_B.gtf B_origin.maf A_origin.maf
eagle -t $CPU -a data_align2_A.bam -r A.reference.fa -v Ref_A.gtf.vcf --omega=1e-40 --mvh --splice --isc --verbose 1> Ref_A.sample.txt 2> Ref_A.sample.readinfo.txt
eagle-rc -a data_align2_A.bam --listonly -o Ref_A.sample Ref_A.sample.txt Ref_A.sample.readinfo.txt > Ref_A.sample.list
eagle -t $CPU -a data_align2_B.bam -r B.reference.fa -v Ref_B.gtf.vcf --omega=1e-40 --mvh --splice --isc --verbose 1> Ref_B.sample.txt 2> Ref_B.sample.readinfo.txt
eagle-rc -a data_align2_B.bam --listonly -o Ref_B.sample Ref_B.sample.txt Ref_B.sample.readinfo.txt > Ref_B.sample.list
## Find the consensus classification based on likelihood
python scripts/ref2_consensus.py -A Ref_A.sample.list -B Ref_B.sample.list -o sample
## Write bam files based on consensus list, using A as the reference
eagle-rc -a data_align2_A.bam -o sample.chrA --readlist sample.chrA.list
eagle-rc -a data_align2_B.bam -o sample.chrB --readlist sample.chrB.list
## Perform read counting as you prefer, for example:
featureCounts -T $CPU -t exon -g transcript_id -a annotation_A.gtf -o sample.A.counts.txt sample.ref.bam
featureCounts -T $CPU -t exon -g transcript_id -a annotation_A.gtf -o sample.B.counts.txt sample.alt.bam
|
tony-kuo/eagle
|
scripts/example.sh
|
Shell
|
gpl-3.0
| 4,650 |
# This file is part of the Aloofix project.
# Copyright (C) 2013 Kevin Johnson <[email protected]>
# Distributed under the terms of the GNU General Public License version 3,
# or (at your option) any later version.
name=tcpdump
version=4.4.0
sequence=1
description="Common-line packet analyzer"
site=http://www.tcpdump.org/release
depends="user-tcpdump libpcap-lib openssl-lib"
builddepends="libpcap-dev openssl-dev"
section=networking
license=BSD-3-Clause
license_files=LICENSE
extra_doc_files="CHANGES CREDITS README"
extra_configure_args="--enable-ipv6
--with-user=tcpdump
--with-chroot=/var/lib/tcpdump
--disable-smb
--with-crypto"
install_target=install
preinstall_hook() {
rm "$preinstalldir/usr/sbin/tcpdump.$version"
strip "$preinstalldir/usr/sbin/tcpdump"
install -d -m 700 "$preinstalldir/var/lib/tcpdump"
}
pkg_base_hook() {
register_postinst "chown tcpdump:tcpdump /var/lib/tcpdump"
}
|
aloofschipperke/aloofix
|
specs/pkgs/tcpdump/spec.sh
|
Shell
|
gpl-3.0
| 930 |
#!/bin/bash
################################################################################
# OpenAirInterface
# Copyright(c) 1999 - 2014 Eurecom
#
# OpenAirInterface is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
#
# OpenAirInterface is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with OpenAirInterface.The full GNU General Public License is
# included in this distribution in the file called "COPYING". If not,
# see <http://www.gnu.org/licenses/>.
#
# Contact Information
# OpenAirInterface Admin: [email protected]
# OpenAirInterface Tech : [email protected]
# OpenAirInterface Dev : [email protected]
#
# Address : Eurecom, Campus SophiaTech, 450 Route des Chappes, CS 50193 - 06904 Biot Sophia Antipolis cedex, FRANCE
#
################################################################################
# file utils.bash
# brief
# author Lionel Gauthier
# company Eurecom
# email: [email protected]
#
cidr2mask() {
local i mask=""
local full_octets=$(($1/8))
local partial_octet=$(($1%8))
for ((i=0;i<4;i+=1)); do
if [ $i -lt $full_octets ]; then
mask+=255
elif [ $i -eq $full_octets ]; then
mask+=$((256 - 2**(8-$partial_octet)))
else
mask+=0
fi
test $i -lt 3 && mask+=.
done
echo $mask
}
black='\E[30m'
red='\E[31m'
green='\E[32m'
yellow='\E[33m'
blue='\E[34m'
magenta='\E[35m'
cyan='\E[36m'
white='\E[37m'
reset_color='\E[00m'
ROOT_UID=0
E_NOTROOT=67
HOSTNAME=$(hostname -f)
trim ()
{
echo "$1" | sed -n '1h;1!H;${;g;s/^[ \t]*//g;s/[ \t]*$//g;p;}'
}
trim2()
{
local var=$@
var="${var#"${var%%[![:space:]]*}"}" # remove leading whitespace characters
var="${var%"${var##*[![:space:]]}"}" # remove trailing whitespace characters
echo -n "$var"
}
cecho() # Color-echo
# arg1 = message
# arg2 = color
{
local default_msg="No Message."
message=${1:-$default_msg}
color=${2:-$green}
echo -e -n "$color$message$reset_color"
echo
return
}
echo_error() {
local my_string=""
until [ -z "$1" ]
do
my_string="$my_string$1"
shift
done
cecho "$my_string" $red
}
echo_warning() {
local my_string=""
until [ -z "$1" ]
do
my_string="$my_string$1"
shift
done
cecho "$my_string" $yellow
}
echo_success() {
local my_string=""
until [ -z "$1" ]
do
my_string="$my_string$1"
shift
done
cecho "$my_string" $green
}
bash_exec() {
output=$($1 2>&1)
result=$?
if [ $result -eq 0 ]
then
echo_success "$1"
else
echo_error "$1: $output"
fi
}
extract() {
if [ -f $1 ] ; then
case $1 in
*.tar.bz2) tar xvjf $1 ;;
*.tar.gz) tar xvzf $1 ;;
*.bz2) bunzip2 $1 ;;
*.rar) unrar $1 ;;
*.gz) gunzip $1 ;;
*.tar) tar xvf $1 ;;
*.tbz2) tar xvjf $1 ;;
*.tgz) tar xvzf $1 ;;
*.zip) unzip $1 ;;
*.Z) uncompress $1 ;;
*.7z) 7z x $1 ;;
*) echo_error "'$1' cannot be extracted via >extract<" ; return 1;;
esac
else
echo_error "'$1' is not a valid file"
return 1
fi
return 0
}
set_openair() {
path=`pwd`
declare -i length_path
declare -i index
length_path=${#path}
for i in 'openair1' 'openair2' 'openair3' 'openair-cn' 'targets'
do
index=`echo $path | grep -b -o $i | cut -d: -f1`
#echo ${path%$token*}
if [[ $index -lt $length_path && index -gt 0 ]]
then
declare -x OPENAIR_DIR
index=`expr $index - 1`
openair_path=`echo $path | cut -c1-$index`
#openair_path=`echo ${path:0:$index}`
export OPENAIR_DIR=$openair_path
export OPENAIR_HOME=$openair_path
export OPENAIR1_DIR=$openair_path/openair1
export OPENAIR2_DIR=$openair_path/openair2
export OPENAIR3_DIR=$openair_path/openair3
export OPENAIRCN_DIR=$openair_path/openair-cn
export OPENAIR_TARGETS=$openair_path/targets
return 0
fi
done
return -1
}
test_install_asn1c_4_rrc_cellular() {
if [ -d $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c/asn1c ]; then
if [ -x $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c/asn1c/asn1c/asn1c ]; then
if [ -x /usr/local/bin/asn1c ]; then
diff /usr/local/bin/asn1c $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c/asn1c/asn1c/asn1c >/dev/null 2>&1;
if [ $? -eq 0 ]; then
echo_success "asn1c for RRC cellular installed"
return 0
fi
fi
echo_warning "Installing asn1c for RRC cellular..."
cd $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c/asn1c
sudo make install
return 0
fi
else
echo_warning "asn1c for RRC cellular is not installed in $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c/. Installing it"
cd $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c
svn co https://asn1c.svn.sourceforge.net/svnroot/asn1c/trunk asn1c
fi
echo_warning "Configuring and building and installing asn1c for RRC cellular..."
cd $OPENAIR2_DIR/RRC/LITE/MESSAGES/asn1c/asn1c
./configure
make
sudo make install
}
wait_process_started () {
if [ -z "$1" ]
then
echo_error "WAITING FOR PROCESS START: NO PROCESS"
return 1
fi
ps -C $1 > /dev/null 2>&1
while [ $? -ne 0 ]; do
echo_warning "WAITING FOR $1 START"
sleep 2
ps -C $1 > /dev/null 2>&1
done
echo_success "PROCESS $1 STARTED"
return 0
}
is_process_started () {
if [ -z "$1" ]
then
echo_error "WAITING FOR PROCESS START: ERROR NO PROCESS NAME IN ARGUMENT"
return 1
fi
ps -C $1 > /dev/null 2>&1
if [ $? -ne 0 ]
then
echo_success "PROCESS $1 NOT STARTED"
return 1
fi
echo_success "PROCESS $1 STARTED"
return 0
}
assert() {
# If condition false
# exit from script with error message
E_PARAM_ERR=98
E_PARAM_FAILED=99
if [ -z "$2" ] # Not enought parameters passed.
then
return $E_PARAM_ERR
fi
lineno=$2
if [ ! $1 ]
then
echo "Assertion failed: \"$1\""
echo "File \"$0\", line $lineno"
exit $E_ASSERT_FAILED
fi
}
test_install_package() {
# usage: test_install_package package_name_to_be_installed optional_option_to_apt_get_install
dpkg --get-selections $1 | grep -i install > /dev/null 2>&1
if [ $? -ne 0 ]; then
echo_warning "Package $1 is not installed. Installing it." >&2
apt-get install $2 $1 -y
dpkg --get-selections $1 | grep -i install > /dev/null 2>&1
if [ $? -ne 0 ]; then
exit 1
fi
else
echo_success "$1 is installed"
fi
return 0
}
test_command_install_package() {
# usage: test_command_install_package searched_binary package_to_be_installed_if_binary_not_found optional_option_to_apt_get_install
if [ $# -eq 2 ]; then
command -v $1 >/dev/null 2>&1 || { echo_warning "Program $1 is not installed. Trying installing it." >&2; apt-get install $2 -y; command -v $1 >/dev/null 2>&1 || { echo_error "Program $1 is not installed. Aborting." >&2; exit 1; };}
else
if [ $# -eq 3 ]; then
command -v $1 >/dev/null 2>&1 || { echo_warning "Program $1 is not installed. Trying installing it (apt-get install $3 $2)." >&2; apt-get install $3 $2 -y; command -v $1 >/dev/null 2>&1 || { echo_error "Program $1 is not installed. Aborting." >&2; exit 1; };}
else
echo_success "test_command_install_package: BAD PARAMETER"
exit 1
fi
fi
echo_success "$1 available"
}
test_command_install_script() {
# usage: test_command_install_script searched_binary script_to_be_invoked_if_binary_not_found
command -v $1 >/dev/null 2>&1 || { echo_warning "Program $1 is not installed. Trying installing it." >&2; bash $2; command -v $1 >/dev/null 2>&1 || { echo_error "Program $1 is not installed. Aborting." >&2; exit 1; };}
echo_success "$1 available"
}
start_openswitch_daemon() {
rmmod -s bridge
if [[ -e "/lib/modules/`uname -r`/extra/openvswitch.ko" ]] ; then
bash_exec "insmod /lib/modules/`uname -r`/extra/openvswitch.ko"
else
echo_error "/lib/modules/`uname -r`/extra/openvswitch.ko not found, exiting"
exit -1
fi
is_process_started "ovsdb-server"
if [ $? -ne 0 ]
then
ovsdb-server --remote=punix:/usr/local/var/run/openvswitch/db.sock --remote=db:Open_vSwitch,manager_options --pidfile --detach
wait_process_started "ovsdb-server"
fi
# To be done after installation
# ovs-vsctl --no-wait init
is_process_started "ovs-vswitchd"
if [ $? -ne 0 ]
then
ovs-vswitchd --pidfile --detach
wait_process_started "ovs-vswitchd"
fi
}
check_enb_config() {
if [ ! -f $OPENAIR3_DIR/OPENAIRMME/UTILS/CONF/enb_$HOSTNAME.conf ]
then
echo "Cannot find file $OPENAIR3_DIR/OPENAIRMME/UTILS/CONF/enb_$HOSTNAME.conf"
echo "Please make sure to create one that fits your use (you can use mme_default.conf file as template)"
exit -1
fi
}
check_for_root_rights() {
if [[ $EUID -ne 0 ]]; then
echo "This script must be run as root" 1>&2
exit -1
fi
}
rotate_log_file () {
if [ -f $1 ]; then
TIMESTAMP=`date +%Y-%m-%d.%Hh_%Mm_%Ss`
NEWLOGFILE=$1.$TIMESTAMP
mv $1 $NEWLOGFILE
cat /dev/null > $1
sync
nohup gzip -f -9 $NEWLOGFILE &
fi
}
###########################################################
declare -x OPENAIR_DIR=""
declare -x OPENAIR_HOME=""
declare -x OPENAIR1_DIR=""
declare -x OPENAIR2_DIR=""
declare -x OPENAIR3_DIR=""
declare -x OPENAIRCN_DIR=""
declare -x OPENAIR_TARGETS=""
###########################################################
set_openair
cecho "OPENAIR_DIR = $OPENAIR_DIR" $green
cecho "OPENAIR_HOME = $OPENAIR_HOME" $green
cecho "OPENAIR1_DIR = $OPENAIR1_DIR" $green
cecho "OPENAIR2_DIR = $OPENAIR2_DIR" $green
cecho "OPENAIR3_DIR = $OPENAIR3_DIR" $green
cecho "OPENAIRCN_DIR = $OPENAIRCN_DIR" $green
cecho "OPENAIR_TARGETS = $OPENAIR_TARGETS" $green
|
mspublic/openair4G-mirror
|
targets/PROJECTS/SPECTRA/DEMO_SPECTRA/spectra_demo_src/common/openair_scripts/utils.bash
|
Shell
|
gpl-3.0
| 10,978 |
#!/usr/bin/env bash
find . -name hardware_header.h -exec rm {} \;
find . -name hardware_init.h -exec rm {} \;
find . -name protocol_header.h -exec rm {} \;
find . -name protocol_init.h -exec rm {} \;
find . -name operator_header.h -exec rm {} \;
find . -name operator_init.h -exec rm {} \;
find . -name action_header.h -exec rm {} \;
find . -name action_init.h -exec rm {} \;
git checkout master
git stash
git stash clear
git pull origin master
git fetch --tags
cp CMakeLists.txt CMakeLists.txt.original
GIT=$(git describe --always | sed -e 's/^v//g');
COMMIT=$(echo $GIT | cut -d'-' -f2);
SHA=$(echo $GIT | cut -d'-' -f3);
VERSION=$(echo $GIT | cut -d'-' -f1 | sed -e 's/^v//g');
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-amd64.cmake
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh amd64
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-amd64.cmake -DCMAKE_BUILD_TYPE=Debug
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh amd64 debug
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-i386.cmake
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh i386
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-i386.cmake -DCMAKE_BUILD_TYPE=Debug
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh i386 debug
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-arm.cmake -DCMAKE_C_FLAGS=-fomit-frame-pointer
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh armhf
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-arm.cmake -DCMAKE_BUILD_TYPE=Debug -DCMAKE_C_FLAGS=-fomit-frame-pointer
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh armhf debug
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-mipsel.cmake
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh mipsel
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-mipsel.cmake -DCMAKE_BUILD_TYPE=Debug
make -j4
cpack -G DEB
mv *.deb ../
cd ..
./gen_package.sh mipsel debug
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-aarch64.cmake
make -j4
cpack -G DEB
mv *.deb ../
cd ..
for i in $(find *.deb); do
cp $i $i.cpy;
done
./gen_package.sh arm64
for i in $(find *.cpy); do
mv $i ${i/.cpy/};
done
./gen_package.sh aarch64
sed -e"" 's/MODULESPACK ON/MODULESPACK OFF/g' CMakeLists.txt > CMakeLists.txt.tmp
cp CMakeLists.txt.tmp CMakeLists.txt
./setup.sh clear
mkdir -p build
cd build
cmake .. -DCMAKE_TOOLCHAIN_FILE=/home/pilight/tools/toolchain-aarch64.cmake -DCMAKE_BUILD_TYPE=Debug
make -j4
cpack -G DEB
mv *.deb ../
cd ..
for i in $(find *.deb); do
cp $i $i.cpy;
done
./gen_package.sh arm64 debug
for i in $(find *.cpy); do
mv $i ${i/.cpy/};
done
./gen_package.sh aarch64 debug
mv CMakeLists.txt.original CMakeLists.txt
rm CMakeLists.txt.tmp
rm -r build/
|
pilight/pilight
|
compile_all.sh
|
Shell
|
gpl-3.0
| 4,237 |
#!/usr/bin/env bash
# File : wds-lfs-chk.sh
# Created : <2018-6-26 Tue 23:50:52 BST>
# Modified : <2018-7-07 Sat 01:42:50 BST> #Rλatan
# Author : #Rλatan
# Synopsis : <Check all requirements for the host to buld LFS>
set -e
# use it for debug
#set -x
# ------------------------------------------------------------------------------
#+CHANGELOG
# 0.0.1 :: <2018-6-26 Tue 23:50:52 BST>
# + Iniit
# ==============================================================================
# ------------------------------------------------------------------------------
#+DEFAUL_CONFIG
CMD_VER=0.1.0
CMDNAME=wds-lfs-chk.sh
REQUIRE=(
"bison"
"cat"
"chown"
"cut"
"diff"
"md5sum"
"wget"
"mkdir"
"mount"
"find"
"g++"
"gawk"
"mkfs"
"gcc"
"bash"
"grep"
"gzip"
"sh"
"head"
"ld"
"ldd"
"m4"
"tar"
"make"
"makeinfo"
"patch"
"perl"
"readlink"
"sed"
"tar"
"xz"
"yacc"
)
# Conditional symafors
PAS=$'[ \033[32;1mPAS\033[0m ] '
ERR=$'[ \033[31;1mERR\033[0m ] '
INF="[ INF ] "
# ------------------------------------------------------------------------------
#+UTILITIES_FUNCTIONS
_err()
{ # All errors go to stder.
printf "[%s]: %s\n" "$(date +%s.%3N)" "$1"
}
_msg()
{ # Default message fro stdout.
printf "[%s]: %s\n" "$(date +%s.%3N)" "$1"
}
chk_require()
{ # Check that every required command is available.
declare -a cmds
declare -a warn
cmds=(${1})
_msg "--- [ $FUNCNAME ] ---"
[ "${#cmds}" -eq "0" ] &&
{ _err "${ERR}No arguments provided."; return 1; }
for c in ${cmds[@]}; do
command -v "$c" &>/dev/null
[ "$?" -eq "1" ] &&
warn+=("$c")
done
[ "${#warn}" -ne 0 ] &&
{ _err "${ERR}Commands <${warn[*]}> are not available, install them.";
return 1; }
_msg "${PAS}verification of required commands completed"
}
chk_term()
{ # Check for ANSI terminal for color printing.
local ansi_term
_msg "--- [ $FUNCNAME ] ---"
if [ -t 2 ]; then
_msg "${INF}terminal is <${TERM}>"
if [ "${TERM+set}" = 'set' ]; then
case "$TERM" in
xterm*|rxvt*|urxvt*|linux*|vt*|eterm*)
ANSI_TERM=true
;;
*)
ANSI_TERM=false
ERR="[ ERR ] "
PAS="[ PAS ] "
;;
esac
fi
fi
}
chk_version ()
{ # Bullet prove checking of cmd version.
declare -a cmds
declare -a cmd_ver
declare -a ver_re
cmds=(${1})
ver_re="\b(\d+\.)?(\d+\.)?(\*|\d+)"
_msg "--- [ $FUNCNAME ] ---"
[ "${#cmds}" -eq "0" ] &&
{ _err "${ERR}No arguments provided."; return 1; }
for c in ${cmds[@]}; do
if eval "${c} -V:version" &>/dev/null; then
cmd_ver="$(eval ${c} -V:version | grep -m1 -oP "$ver_re" | head -n1)"
_msg "${c} ${cmd_ver}"
elif eval "${c} --version" &>/dev/null; then
cmd_ver="$(eval ${c} --version | grep -m1 -oP "$ver_re" | head -n1)"
_msg "${c} ${cmd_ver}"
elif eval "${c} -V" &>/dev/null; then
cmd_ver="$(eval ${c} -V | grep -m1 -oP "$ver_re" | head -n1)"
_msg "${c} ${cmd_ver}"
elif eval "${c} --help" &>/dev/null; then
cmd_ver="$(eval ${c} --help | grep -m1 -oP "$ver_re" | head -n1)"
_msg "${c} ${cmd_ver}"
elif eval "${c} -version" &>/dev/null; then
cmd_ver="$(eval ${c} -version &>1 | grep -m1 -oP "$ver_re" | head -n1)"
_msg "${c} ${cmd_ver}"
fi
done
}
chk_link ()
{ # Check if command is symlink to actual one.
declare -a cmds
declare -a cmd_path
cmds=(${1})
_msg "--- [ $FUNCNAME ] ---"
[ "${#cmds}" -eq "0" ] &&
{ _err "${ERR}No arguments provided."; return 1; }
for c in ${cmds[@]}; do
cmd_path=$(command -v "$c")
if [[ -h "$cmd_path" ]]; then
_msg "${c} -> ${cmd_path} -> $(readlink -f "${cmd_path}")"
fi
done
}
chk_pkg ()
{ # Check wich package command belong to.
declare -a cmds
cmds=(${1})
_msg "--- [ $FUNCNAME ] ---"
[ "${#cmds}" -eq "0" ] &&
{ _err "${ERR}No arguments provided."; return 1; }
for c in ${cmds[@]}; do
if command -v rpm &>/dev/null; then
_msg "${c} -> $(rpm -qf $(which "$c"))"
elif command -v dpkg-query &>/dev/null; then
dpkg-query -S $(which "$c")
fi
done
}
chk_build_sys ()
{
_msg "--- [ $FUNCNAME ] ---"
_msg "your dinamik linker is:"
echo
readelf -l /bin/ls | grep interpreter
echo
_msg "linker search order PATH"
echo
ld --verbose | grep "SEARCH"
echo
echo 'int main(){}' > dummy.c && g++ -o dummy dummy.c
if [ -x dummy ]; then
_msg "${PAS}g++ compilation";
else
_msg "${ERR}g++ compilation"
fi
rm -f dummy.c dummy
echo 'int main(){}' > dummy.c && gcc -o dummy dummy.c
if [ -x dummy ]; then
_msg "${PAS}gcc compilation";
else
_msg "${ERR}gcc compilation"
fi
rm -f dummy.c dummy
}
# ------------------------------------------------------------------------------
recomendations ()
{
cat <<EOF
Your host system should have the following software with the minimum
versions indicated.
Bash-3.2 (/bin/sh should be a symbolic or hard link to bash)
Binutils-2.17 (Versions greater than 2.30 are not recommended as they have not been tested)
Bison-2.3 (/usr/bin/yacc should be a link to bison or small script that executes bison)
Bzip2-1.0.4
Coreutils-6.9
Diffutils-2.8.1
Findutils-4.2.31
Gawk-4.0.1 (/usr/bin/awk should be a link to gawk)
GCC-4.7
Glibc-2.11
Grep-2.5.1a
Gzip-1.3.12
Linux Kernel-3.2
M4-1.4.10
Make-3.81
Patch-2.5.4
Perl-5.8.8
Sed-4.1.5
Tar-1.22
Texinfo-4.7
Xz-5.0.0
EOF
}
main ()
{
printf "Start %s v%s at %s\n\n" "$CMD_NAME" "$CMD_VER" "$(date)"
chk_term
chk_require "${REQUIRE[*]}" || exit 1
chk_version "${REQUIRE[*]}"
chk_link "${REQUIRE[*]}"
chk_pkg "${REQUIRE[*]}"
chk_build_sys
_msg "${INF}$(cat /proc/version)"
recomendations
}
main "$@"
# End of wds-lfs-chk.sh
|
Hellseher/wds
|
wds-hacks/wds-lfs-chk.sh
|
Shell
|
gpl-3.0
| 6,356 |
#!/bin/bash
# Copyright (C) 2018 Maciej Delmanowski <[email protected]>
# Copyright (C) 2018 DebOps <https://debops.org/>
# SPDX-License-Identifier: GPL-3.0-or-later
set -o nounset -o pipefail -o errexit
make clean-tests
make test-spdx test-pep8 test-yaml test-shell
make check
|
ganto/debops
|
lib/travis/syntax/script.sh
|
Shell
|
gpl-3.0
| 281 |
# pacman -Qo /bin/netstat -- to find packages
pacman -S libelf linux linux-headers \
systemd gdb rsync net-tools strace openssh make bison flex
|
mgood7123/UPM
|
Sources/dtrace-20160613/tools/get-deps-arch.sh
|
Shell
|
gpl-3.0
| 145 |
#!/bin/bash
ORG_ID=1
PRODUCT_NAME="OCP Docker images"
upstream_repos=( openshift3/ose-deployer \
openshift3/ose-docker-registry \
openshift3/registry-console \
openshift3/ose-pod \
openshift3/ose-docker-builder \
openshift3/ose-sti-builder \
openshift3/ose-haproxy-router \
openshift3/logging-elasticsearch \
openshift3/logging-kibana \
openshift3/logging-fluentd \
openshift3/logging-auth-proxy \
openshift3/metrics-hawkular-metrics \
openshift3/metrics-cassandra \
openshift3/metrics-heapster \
openshift3/ose \
openshift3/node \
openshift3/openvswitch \
rhel7/etcd \
openshift3/ose-keepalived-ipfailover
)
xpaas_images=( redhat-openjdk-18/openjdk18-openshift \
jboss-webserver-3/webserver30-tomcat8-openshift \
jboss-eap-7/eap70-openshift \
redhat-sso-7/sso70-openshift \
rhscl/postgresql-95-rhel7 \
rhscl/nodejs-4-rhel7 \
rhscl/nodejs-6-rhel7 \
rhscl/python-27-rhel7 \
rhscl/python-35-rhel7
)
jenkins_images=( openshift3/jenkins-2-rhel7 \
openshift3/jenkins-slave-base-rhel7 \
openshift3/jenkins-slave-maven-rhel7 \
openshift3/jenkins-slave-nodejs-rhel7
)
hammer product create --name "$PRODUCT_NAME" --organization-id $ORG_ID
for i in ${upstream_repos[@]}; do
hammer repository create --name "$i" --organization-id $ORG_ID --content-type docker --url "https://registry.access.redhat.com" --docker-upstream-name "$i" --product "$PRODUCT_NAME"
done
for i in ${xpaas_images[@]}; do
hammer repository create --name "$i" --organization-id $ORG_ID --content-type docker --url "https://registry.access.redhat.com" --docker-upstream-name "$i" --product "$PRODUCT_NAME"
done
for i in ${jenkins_images[@]}; do
hammer repository create --name "$i" --organization-id $ORG_ID --content-type docker --url "https://registry.access.redhat.com" --docker-upstream-name "$i" --product "$PRODUCT_NAME"
done
|
opuk/satellite
|
hammer/populate_ose/populate-docker.sh
|
Shell
|
gpl-3.0
| 2,072 |
#!/bin/sh
# Use-case: start integration branch from master
function cleanup_branches {
local branches=`git branch | grep -v master`
for branch in $branches; do
(git branch -D $branch) > /dev/null 2>&1
done
}
function show_scenario {
echo ""
echo "Create an integration branch, which contains the following bugfixes:"
git branch | grep bugfix
echo ""
}
show_scenario
cleanup_branches
rm -Rf *.sh
|
Salamangkero/git-build
|
sandbox/exercises/exercise_00.sh
|
Shell
|
gpl-3.0
| 417 |
#!/bin/sh
set -e # exit on first error
OPENCV_URL=https://github.com/Itseez/opencv/archive/3.0.0-alpha.zip
install_dependencies()
{
sudo apt-get -y install \
libopencv-dev \
build-essential \
cmake \
git \
libgtk2.0-dev \
pkg-config \
python-dev \
python-numpy \
libdc1394-22 \
libdc1394-22-dev \
libjpeg-dev \
libpng12-dev \
libtiff4-dev \
libjasper-dev \
libavcodec-dev \
libavformat-dev \
libswscale-dev \
libxine-dev \
libgstreamer0.10-dev \
libgstreamer-plugins-base0.10-dev \
libv4l-dev \
libtbb-dev \
libqt4-dev \
libfaac-dev \
libmp3lame-dev \
libopencore-amrnb-dev \
libopencore-amrwb-dev \
libtheora-dev \
libvorbis-dev \
libxvidcore-dev \
x264 \
v4l-utils \
unzip
}
download_opencv()
{
mkdir -p /usr/local/src/opencv
cd /usr/local/src/opencv
wget $OPENCV_URL -O opencv-3.0.0-alpha.zip
unzip opencv-3.0.0-alpha.zip
cd -
}
install_opencv()
{
# compile and install opencv
cd /usr/local/src/opencv
cd opencv-3.0.0-alpha
mkdir -p build
cd build
cmake \
-D CMAKE_BUILD_TYPE=RELEASE \
-D CMAKE_INSTALL_PREFIX=/usr/local \
-D WITH_TBB=ON \
-D WITH_V4L=ON \
-D WITH_QT=ON \
-D WITH_OPENGL=ON ..
make -j 4
# sudo make install
}
# MAIN
install_dependencies
#download_opencv
install_opencv
|
chutsu/slam
|
slam_vision/scripts/opencv3_install.sh
|
Shell
|
gpl-3.0
| 1,566 |
#!/bin/bash
set -e
DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
mkdir -p $DIR/build
npm install
bower update
gulp build
cd $DIR/dist
touch $DIR/build/frontend.zip
rm $DIR/build/frontend.zip
zip -r $DIR/build/frontend.zip *
cd $DIR
|
rudywaltz/web2-frontend
|
build.sh
|
Shell
|
gpl-3.0
| 242 |
#!/bin/bash -x
#source /host/settings.sh
restore_data() {
drush @qtr sql-query --file=$(pwd)/qtr.sql
$(drush @qtr sql-connect --database=qtr_data) < $(pwd)/qtr_data.sql
}
restore_config() {
# enable features
while read feature; do
drush --yes @qtr pm-enable $feature
drush --yes @qtr features-revert $feature
done < qtr_features.txt
while read feature; do
drush --yes @qtr_dev pm-enable $feature
drush --yes @qtr_dev features-revert $feature
done < qtr_dev_features.txt
# restore private variables
drush @qtr php-script $(pwd)/restore-private-vars-qtr.php
drush @qtr_dev php-script $(pwd)/restore-private-vars-qtr-dev.php
# twitter config
if [[ -f trc ]]; then
cp trc /home/twitter/.trc
chown twitter: /home/twitter/.trc
fi
}
restore_custom_scripts() {
if [[ ! -f /host/backup.sh ]] && [[ -f backup.sh ]]; then
cp backup.sh /host/
fi
if [[ ! -f /host/restore.sh ]] && [[ -f restore.sh ]]; then
cp restore.sh /host/
fi
if [[ ! -d /host/cmd ]] && [[ -d cmd ]]; then
cp -a cmd /host/
fi
if [[ ! -d /host/scripts ]] && [[ -d scripts ]]; then
cp -a scripts /host/
fi
}
# go to the backup directory
backup=$1
cd /host/$backup
# restore
restore_data
restore_config
# restore any custom scripts
restore_custom_scripts
# custom restore script
[[ -f /host/restore.sh ]] && source /host/restore.sh
|
Q-Translate/qtr_server
|
ds/scripts/restore.sh
|
Shell
|
gpl-3.0
| 1,462 |
#!/bin/sh
#TODO mieux gérer les chemins (pour pouvoir appeler le script de n'importe où)
JARS=`/bin/ls lib/*.jar`
CLASSPATH=""
for JAR in $JARS ; do
CLASSPATH=$CLASSPATH:$JAR
done
java -cp "$CLASSPATH" io.github.algorys.agshmne.Agshmne
|
algorys/agshmne
|
packager/src/main/script/agshmne.sh
|
Shell
|
gpl-3.0
| 248 |
atm_forcing=$1
sfc_forcing=$2
out=$3
python erai2icar.py $atm_forcing $sfc_forcing $out
|
johanneshorak/erai2icar
|
prep_for_icar.sh
|
Shell
|
gpl-3.0
| 88 |
#!/bin/bash
echo "scale=2 ; $*" | sed -e "s:x:*:g" | sed -e "s:,::g" | bc
#function math
#{
# echo "scale=2 ; $*" | sed -e "s:x:*:g" | sed -e "s:,::g" | bc
#}
|
KIAaze/bin_and_dotfiles_public
|
bins/public_bin/math.sh
|
Shell
|
gpl-3.0
| 167 |
#!/bin/bash
#/media/StorageOne/HTS/VirusMeta/SAM_BAM/circos_plot_cov/circos_pipeline.sh /media/StorageOne/HTS/Projects/2011_N17_Viraskin2-HiSeq /media/StorageOne/HTS/Projects/2011_N17_Viraskin2-HiSeq/anecto_virus.fasta /media/StorageOne/HTS/Projects/2011_N17_Viraskin2-HiSeq/Data/Intensities/BaseCalls/forward.fastq /media/StorageOne/HTS/Projects/2011_N17_Viraskin2-HiSeq/Data/Intensities/BaseCalls/reverse.fastq
##########################
export project_work_dir=$1
export path_htsa_dir=/media/StorageOne/HTS
##########################
cp -r $path_htsa_dir/VirusMeta/SAM_BAM/circos_plot_cov $1/circos_plot_cov
##
if [ -f $1/circos_plot_cov/data/histogram.txt ];
then
rm $1/circos_plot_cov/data/histogram.txt
fi
if [ -f $1/circos_plot_cov/circos.png ];
then
rm $1/circos_plot_cov/circos.png
fi
if [ -f $1/circos_plot_cov/circos.csv ];
then
rm $1/circos_plot_cov/circos.csv
fi
if [ -f $1/circos_plot_cov/data/histogram.txt ];
then
rm $1/circos_plot_cov/data/histogram.txt
fi
###
cd $project_work_dir/circos_plot_cov
#$path_htsa_dir/VirusMeta/SAM_BAM/BWA_NR.sh $1/b_actine_map $1/circos_plot_cov/b_actine.fasta $2 $3
##########################################################################################
# prepare files
##########################################################################################
export work_fasta=$(basename $2)
export work_fasta_map=work_fasta_map
if [ -d $1/$work_fasta_map ]; then
rm -r $1/$work_fasta_map
fi
mkdir $1/$work_fasta_map
cp $2 $1/$work_fasta_map/$work_fasta #copy query fasta in the working directory
##########################################################################################
# perform BWA-MEM allignment and analyse the allignment
##########################################################################################
cd $1/$work_fasta_map
/usr/local/bin/bwa index $work_fasta
/usr/local/bin/samtools faidx $work_fasta
/usr/local/bin/bwa mem $work_fasta $3 $4 -t 70 -M > aln-pe.sam
#/usr/local/bin/samtools view -@ 70 -q 10 -b -S aln-pe.sam > aln-pe.bam
/usr/local/bin/samtools view -@ 70 -b -S aln-pe.sam > aln-pe.bam
/usr/local/bin/samtools sort -@ 70 aln-pe.bam aln-pe.sorted
#/usr/local/bin/samtools fillmd -b aln-pe.sorted.bam $db > aln-pe.sorted.md.bam
#/usr/local/bin/samtools view -@ 70 aln-pe.sorted.bam | cut -f1,2,3,4,8,5,9 > $work_fasta.txt
/usr/local/bin/samtools fillmd -b aln-pe.sorted.bam $work_fasta > aln-pe.sorted.md.bam
/usr/local/bin/samtools view -@ 70 aln-pe.sorted.md.bam | awk '{print $1,"\t",$2"\t",$3,"\t",$4,"\t",$8,"\t",$5,"\t",$9,"\t",length($10),"\t",$6,"\t",$15}' > $work_fasta.txt
#/usr/local/bin/samtools index aln-pe.sorted.md.bam
#/usr/local/bin/samtools mpileup -f $db aln-pe.sorted.bam > aln-pe.pileup
#/usr/local/bin/samtools idxstats aln-pe.sorted.md.bam > nr_ref_$work_fasta.idxstats.txt
###
python $path_htsa_dir/VirusMeta/SAM_BAM/translate_pysam.py $work_fasta.txt sam_final_$work_fasta.txt unmapped_$work_fasta.txt nr_ref_$work_fasta.txt
cat sam_final_$work_fasta.txt | awk -F"\t" '{if($12 == 0 && $13>=90 && $14>=75) {print $1}}' | sort -k1,1 -T $1 | awk '!x[$1]++' > $work_fasta.ID
awk 'NR==FNR{a[$1];next} !($1 in a) {print $1}' $work_fasta.ID $4 > NON_$work_fasta.ID
awk '{x++}END{ print x}' NON_$work_fasta.ID > nr_unmapped.txt
awk '{x++}END{ print x}' $work_fasta.ID > nr_ref_$work_fasta.awk.txt
cd $project_work_dir/circos_plot_cov
/usr/local/bin/samtools depth $1/$work_fasta_map/aln-pe.sorted.bam > position_coverage.txt
#rm $1/$work_fasta_map/$work_fasta*
#rm $1/$work_fasta_map/$work_fasta
rm $1/$work_fasta_map/*.sam
rm $1/$work_fasta_map/*.bam
##############################
#create circos Cariotype file#
##############################
/usr/local/bin/getorf -sequence $2 -outseq ORF.pos -find 3 -minsize 240
#create tiles_orf_forward.txt
grep ">" ORF.pos | awk '{gsub(">","",$0); print $0}' | awk -F"\t" '{gsub("-","",$0); print $0}' | awk -F" " '{if($4 != "(REVERSE") print $0 }' | awk -F"[" '{print $1,$2,$3}' | awk -F"]" '{print $1,$2,$3}' | awk -F" " '{print $1,$2,$3}' | awk -F"_" '{print $1,$2}' | awk -F" " '{print $1,$3,$4}' > data/tiles_orf.txt
cat $2 | awk 'BEGIN{RS=">"}NR>1{sub("\n","\t"); gsub("\n",""); print RS$0}' | awk -F"\t" '{gsub(">","",$1); print "chr - "$1,$1,0,length($2),"chr12"}' > data/virus_genome.txt
########################
#Histogram for coverage#
########################
echo '
position_coverage<-read.table("position_coverage.txt")
#estimate relative coverage
position_coverage$percent_coverage<-position_coverage$V3/max(position_coverage$V3)
#create end position (the same as start)
position_coverage$end_pos<-position_coverage$V2
#arrange columns according to circos format
position_coverage<-position_coverage[,c("V1","V2","end_pos","percent_coverage")]
colnames(position_coverage)<-c("chr","start","end","value")
#now write file 'histogram.txt'
write.table(position_coverage,"data/histogram.txt", row.names=F, col.names=F, quote=F)
' > histogram_format.R
R CMD BATCH --no-save histogram_format.R
perl $path_htsa_dir/VirusMeta/public_programs/circos-0.64/bin/circos -conf etc/circos.conf
|
NIASC/VirusMeta
|
SAM_BAM/circos_plot_cov/circos_pipeline.sh
|
Shell
|
gpl-3.0
| 5,116 |
#!/bin/bash
cd classes
scala fos.FJ "
class A extends Object
{
Object x1;
A(Object x1)
{
super();
this.x1 = x1;
}
Object foo(A x1, B x2)
{
return x2;
}
}
class B extends Object
{
A()
{
super();
}
}
(new A(new B())).foo(new A(new Object()), new B())
"
|
sana/WorkAtEPFL
|
FeatherweightJava/tests/Computation-RInvk.sh
|
Shell
|
gpl-3.0
| 330 |
#!/bin/sh
set -xe
cd /tmp
mkdir build && cd build
cmake -DCMAKE_INSTALL_PREFIX=~/.local -DCMAKE_CXX_FLAGS="-Wall -Wextra" /io
make install
make tests
ctest --output-on-failure --timeout 100 ${MAKEFLAGS}
|
openturns/otmixmod
|
run_docker_build.sh
|
Shell
|
gpl-3.0
| 205 |
/home/share/user/user101/software/ngsTools/angsd/angsd -gl 1 -anc ancestral -dosaf 1 -only_proper_pairs 1 -uniqueOnly 1 -remove_bads 1 -C 50 -minMapQ 30 -minQ 20 -setMinDepth 35 -setMaxDepth 280 -out pda_e -bam file.list -ref ancestral -P 32 -sites /home/share/user/user101/projects/yangshu/16.angsd/01.regions_without_repeat/01.generate_sites.pl.txt
|
wk8910/bio_tools
|
36.reseq_pipeline/05.angsd/01.step1.onePop/01.dosaf.sh
|
Shell
|
mpl-2.0
| 351 |
#!/bin/bash
i=5
while test $i -gt 0
do
echo ${i}...
i=$((i-1))
sleep 1
done
echo Décollage.
|
Marsonge/scripts
|
script4.sh
|
Shell
|
mpl-2.0
| 97 |
#!/bin/sh
docker-compose exec -e RAILS_ENV=production imgshr rails c
|
nning/imgshr
|
examples/traefik/console.sh
|
Shell
|
agpl-3.0
| 69 |
#!/bin/bash
#
# packaging.sh Copyright (C) 2019 GEM Foundation
#
# OpenQuake is free software: you can redistribute it and/or modify it
# under the terms of the GNU Affero General Public License as published
# by the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# OpenQuake is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with OpenQuake. If not, see <http://www.gnu.org/licenses/>
# shellcheck disable=SC1091
. .travis/common.sh
checkcmd pip find zipinfo diff
function finish {
rm -Rf sources package "$tmp"
}
trap finish EXIT
tmp=$(mktemp -d)
pip wheel --no-deps -w "$tmp" .
find openquake/ -type f ! -name \*.pyc | grep -Ev 'openquake/__init__.py|/tests/|nrml_examples' | sort > sources
zipinfo -1 "$tmp"/openquake.engine*.whl | grep '^openquake/' | grep -v 'nrml_examples' | sort > package
diff -uN sources package
|
gem/oq-engine
|
.travis/packaging.sh
|
Shell
|
agpl-3.0
| 1,148 |
source common.sh
set +x
expect_trace() {
expr="$1"
expect="$2"
actual=$(
nix-instantiate \
--trace-function-calls \
--expr "$expr" 2>&1 \
| grep "function-trace" \
| sed -e 's/ [0-9]*$//'
);
echo -n "Tracing expression '$expr'"
set +e
msg=$(diff -swB \
<(echo "$expect") \
<(echo "$actual")
);
result=$?
set -e
if [ $result -eq 0 ]; then
echo " ok."
else
echo " failed. difference:"
echo "$msg"
return $result
fi
}
# failure inside a tryEval
expect_trace 'builtins.tryEval (throw "example")' "
function-trace entered (string):1:1 at
function-trace entered (string):1:19 at
function-trace exited (string):1:19 at
function-trace exited (string):1:1 at
"
# Missing argument to a formal function
expect_trace '({ x }: x) { }' "
function-trace entered (string):1:1 at
function-trace exited (string):1:1 at
"
# Too many arguments to a formal function
expect_trace '({ x }: x) { x = "x"; y = "y"; }' "
function-trace entered (string):1:1 at
function-trace exited (string):1:1 at
"
# Not enough arguments to a lambda
expect_trace '(x: y: x + y) 1' "
function-trace entered (string):1:1 at
function-trace exited (string):1:1 at
"
# Too many arguments to a lambda
expect_trace '(x: x) 1 2' "
function-trace entered (string):1:1 at
function-trace exited (string):1:1 at
"
# Not a function
expect_trace '1 2' "
function-trace entered (string):1:1 at
function-trace exited (string):1:1 at
"
set -e
|
NixOS/nix
|
tests/function-trace.sh
|
Shell
|
lgpl-2.1
| 1,565 |
#!/bin/sh
case "$1" in
dev)
export mode="dev"
;;
test)
export mode="test"
;;
*)
export mode="prod"
;;
esac
grails ${mode} drop-postgis-database
grails ${mode} create-postgis-database
grails ${mode} schema-export ./ddl.sql
grails ${mode} run-sql-file ddl.sql
grails ${mode} run-sql-file geoms.sql
grails ${mode} run-script ./scripts/defaults.groovy
#grails ${mode} run-sql-file ../../plugins/omar-scheduler/scripts/tables_postgres.sql
|
radiantbluetechnologies/omar
|
apps/geodata-test/setupdb.sh
|
Shell
|
lgpl-2.1
| 437 |
#!/bin/sh -e
# local variable
CURRENT=$(pwd)
LIBGPG=$CURRENT"/dep/libgpg-error-1.12"
LIBGCRYPT=$CURRENT"/dep/libgcrypt-1.5.2"
LIBTASN=$CURRENT"/dep/libtasn1-3.3"
# check
rm -r tmp || true
rm -r lib || true
rm gcrypt.h || true
rm gcrypt-module.h || true
rm gpg-error.h || true
rm libtasn1.h || true
cd $LIBGPG
rm bin || true
cd $LIBGCRYPT
rm ./src/gpg-error.h || true
cd $CURRENT
mkdir tmp
# Compile libgpg-error
echo " "
echo "*************************************"
echo "* GLS Static library compilation... *"
echo "*************************************"
echo " "
echo " "
echo "#################################"
echo "# Compilation Libgpg-error 1.12 #"
echo "#################################"
cd $LIBGPG
./configure --enable-static=yes --enable-shared=no
make
cd src
cp libgpg_error*.o $CURRENT/tmp/
cd ..
ln -s src bin
# Compile libgcrypt
echo " "
echo "###############################"
echo "# Compilation Libgcrypt 1.5.2 #"
echo "###############################"
cd $LIBGCRYPT
ln -s $LIBGPG/src/gpg-error.h ./src/gpg-error.h
export LDFLAGS="$LDFLAGS -L$LIBGPG/src/.libs"
./configure --with-gpg-error-prefix=$LIBGPG/ --enable-static=yes --enable-shared=no
make
cd src/.libs
ar x libgcrypt.a
cp *.o $CURRENT/tmp/
# Compile libtasn1
echo " "
echo "############################"
echo "# Compilation Libtasn1 3.3 #"
echo "############################"
cd $LIBTASN
./configure --enable-static=yes --enable-shared=no
make
cd lib/gllib
cp *.o $CURRENT/tmp/
cd ..
cp *.o $CURRENT/tmp/
# Compile GLS
echo " "
echo "##########################"
echo "# Compilation GLS Alpha #"
echo "##########################"
cd $CURRENT
ln -s $LIBGCRYPT/src/gcrypt.h gcrypt.h
ln -s $LIBGCRYPT/src/gcrypt-module.h gcrypt-module.h
ln -s $LIBGPG/src/gpg-error.h gpg-error.h
ln -s $LIBTASN/lib/libtasn1.h libtasn1.h
mkdir lib
gcc -DEAI_ADDRFAMILY=5001 -DEAI_NODATA=5002 -c GLSServer.c -o ./tmp/GLSServer.o
gcc -DEAI_ADDRFAMILY=5001 -DEAI_NODATA=5002 -c GLSSocket.c -o ./tmp/GLSSocket.o
gcc -c Crypto.c -o ./tmp/Crypto.o
gcc -c Certificate.c -o ./tmp/Certificate.o
ar rcs ./lib/libgls.a ./tmp/*.o
cp libgls.h ./lib/
cp $LIBGPG/src/gpg-error.h ./lib/
cp $LIBGCRYPT/src/gcrypt.h ./lib/
cp $LIBGCRYPT/src/gcrypt-module.h ./lib/
# Clean
echo " "
echo "#############"
echo "# Cleaning #"
echo "#############"
rm -r tmp
rm gcrypt.h
rm gcrypt-module.h
rm gpg-error.h
rm libtasn1.h
cd $LIBGPG
rm bin
make clean
cd $LIBGCRYPT
rm ./src/gpg-error.h
make clean
cd $LIBTASN
make clean
# end
echo " "
echo "***********************************"
echo "* Done ! Your library is in ./lib *"
echo "***********************************"
|
alvarezgregory/GLS
|
compileStatic.sh
|
Shell
|
lgpl-2.1
| 2,605 |
#!/bin/sh -
GIT_ROOT=/opt/data
if [ $# -lt 1 ]; then
echo "Usage: $0 TAG"
exit 1
fi
if [ ! -w $GIT_ROOT ]; then
echo "You don't have enough rights on $GIT_ROOT to execute this script.";
exit 2
fi
exec git stash && git pull --all && git checkout $1 && git stash pop
|
nuxeo/nuxeo.io
|
tools/upgrade-sources.sh
|
Shell
|
lgpl-2.1
| 277 |
#!/bin/bash
if [[ "$1" = "-h" ]]; then
echo Usage: $0 /path/to/encoded/vts /path/to/patched/up/vts
exit 0
fi
mkdir -p ${2}
for a in ${1}/*VOB; do
name=$(basename $a)
./make_vob ${a} ${2}/${name}
done
|
lu-zero/dvdtools
|
patchup.sh
|
Shell
|
lgpl-2.1
| 220 |
#!/bin/sh
# pancake script to sync a git repo from a mercurial one
# hg-git seems broken as long as git is more restrictive in author names
# so... i just rewrote it from scratch to push commits by blocks
GITDIR=radare2.git
GITPUSH=git+ssh://[email protected]/radare/${GITDIR}
GITPULL=git://github.com/radare/${GITDIR}
controlc() {
echo "^C ignored.. wait or you will do nasty things"
}
trap controlc 2
getgittip() {
cd ${GITDIR}
git log -1|tail -n1 |awk -F 'r2:hg:' '{print $2}'
cd ..
}
gethgtip() {
echo $(hg tip | grep changeset: | cut -d : -f 2)
}
if [ ! -d "${GITDIR}" ]; then
git config --global user.name pancake
git config --global user.email [email protected]
git clone ${GITPULL} ${GITDIR}
[ ! $? = 0 ] && exit 1
else
cd ${GITDIR}
git pull ${GITPULL}
cd ..
fi
GIT_HG_TIP=$(getgittip)
HG_TIP=$(gethgtip)
echo "GIT TIP: ${GIT_HG_TIP}"
echo "HG TIP: ${HG_TIP}"
if [ "${GIT_HG_TIP}" = "${HG_TIP}" ]; then
echo "Nothing to push"
else
echo "Preparing hg to git..."
hg log -v -r ${HG_TIP} -r $((${GIT_HG_TIP}+1)) > /tmp/commitmsg
echo >> /tmp/commitmsg
echo "mk/gitpush.sh: imported from r2:hg:${HG_TIP}" >> /tmp/commitmsg
cd ${GITDIR}
rm -rf *
hg clone .. tmpdir
cp -rf tmpdir/* .
rm -rf tmpdir
DELETED=$(git status | grep deleted |cut -d : -f 2)
git add *
[ -n "${DELETED}" ] && git rm ${DELETED}
git commit -F /tmp/commitmsg
git push ${GITPUSH}
fi
|
glandium/radare2
|
mk/gitpush.sh
|
Shell
|
lgpl-3.0
| 1,388 |
#!/bin/bash
###
# This script builds the project and generates Lider distribution (Lider.tar.gz)
#
# Generated file can be found under /tmp/lider
###
set -e
pushd $(dirname $0) > /dev/null
PRJ_ROOT_PATH=$(dirname $(pwd -P))
popd > /dev/null
echo "Project path: $PRJ_ROOT_PATH"
# Generate Lider packages
echo "Generating Javadoc"
cd "$PRJ_ROOT_PATH"
mvn clean javadoc:aggregate
cd "$PRJ_ROOT_PATH"/target/site
tar -zcf lider-console-javadoc.tar.gz apidocs
cd "$PRJ_ROOT_PATH"
echo "Generated Javadoc"
EXPORT_PATH=/tmp/lider-console
echo "Export path: $EXPORT_PATH"
# Copy resulting files
echo "Copying generated Javadoc to $EXPORT_PATH..."
mkdir -p "$EXPORT_PATH"
mv -f "$PRJ_ROOT_PATH"/target/site/lider-console-javadoc.tar.gz "$EXPORT_PATH"
echo "Copied generated Javadoc."
echo "Operation finished successfully!"
echo "Files can be found under: $EXPORT_PATH"
|
Agem-Bilisim/lider-console
|
scripts/generate-javadoc.sh
|
Shell
|
lgpl-3.0
| 867 |
#!/bin/bash
#requires the dpid and resourceId {$1}/{$2}
echo "Mapping openflow switches to OpenNaaS resource."
response=$(curl -X GET http://admin:123456@localhost:8888/opennaas/vrf/routing/switchMapping)
echo $response
|
dana-i2cat/opennaas-routing-nfv
|
autoMapSwDevices.sh
|
Shell
|
lgpl-3.0
| 220 |
#!/usr/bin/env bash
cd dspot && mvn clean test jacoco:report coveralls:report
|
danzone/dspot
|
.travis/travis-coverage.sh
|
Shell
|
lgpl-3.0
| 79 |
#!/bin/bash
## Identify regions outside of the genic features
## including 5'UTR, 3'UTR, TSS (1kb region cntered on 5'UTR start),
## fragments (unique exonic regions), and introns
## Get bed file of full genome (use chrom.sizes)
awk '{print $1"\t"0"\t"$2}' ${CHROM} > ${ROZ}/${SPECIES}.chrom.sizes.bed
## Combine coordinates of unique features (5'UTR,3'UTR,TSS1kbWindow,TSS300bpWindow,fragments,fusions,intronic)
cat ${FEATuniq}/*_unique.bed ${FRAGMENT} ${FUSION} ${INTRON} | \
sort -k1,1 -k2,2n > ${FEATuniq}/${SPECIES}_all_features.bed
## Get intergenic regions using bedtools
bedtools subtract \
-a ${ROZ}/${SPECIES}.chrom.sizes.bed \
-b ${FEATuniq}/${SPECIES}_all_features.bed \
> ${ROZ}/temp_${SPECIES}_intergenic.bed
## Add intergenic featureIDs
## Require a region length >50bp - <50bp are places in another file in roz
awk '$3-$2>50{print $1"\t"$2"\t"$3"\tintergenic_"$1"_"$2"_"$3}' \
${ROZ}/temp_${SPECIES}_intergenic.bed \
> ${FEATuniq}/${SPECIES}_intergenic.bed
awk '$3-$2<=50{print $1"\t"$2"\t"$3"\tintergenic_"$1"_"$2"_"$3}' \
${ROZ}/temp_${SPECIES}_intergenic.bed \
> ${ROZ}/${SPECIES}_intergenic_LE_50.bed
## Remove temprary files
rm ${ROZ}/temp_${SPECIES}_intergenic.bed
rm ${ROZ}/${SPECIES}.chrom.sizes.bed
|
McIntyre-Lab/papers
|
nanni_chip_rna_2022/scripts/annotation/intergenic_03avn.sh
|
Shell
|
lgpl-3.0
| 1,267 |
#!/bin/bash
# -*- coding:utf-8-unix; mode:sh; -*-
set -u
cd $(dirname "$0")
export PATH=/usr/local/bin:/usr/bin:/bin
BASE_DIR="/var/share/tv_recorded"
TMP="${TMP-/tmp/av-archive}"
SPLIT="./split-ts.sh"
CONVERT="./convert-mp4.sh"
main() {
local m2ts
for m2ts in "$BASE_DIR"{,/**}/*.m2ts; do
if [[ ! -e "$m2ts" ]]
then continue
fi
local new_m2ts="$(normalize_file_name "$m2ts")"
if [[ "$m2ts" != "$new_m2ts" ]]; then
mv -v "$m2ts" "$new_m2ts"
m2ts="$new_m2ts"
fi
local mp4="$(get_mp4_name "$m2ts")"
local log="$(get_log_name "$m2ts")"
if [[ -e "$mp4" ]]
then continue
fi
if [[ -e "$log" ]]
then continue
fi
archive "$m2ts" 2>&1 | tee -a "$log"
if [[ ${PIPESTATUS[0]} -ne 0 ]]
then break
fi
rm "$log"
done
rm -frv "$TMP"
}
normalize_file_name() {
sed 's/〜/~/g' <<<"$*" | \
sed 's/⁉/!?/g' | \
sed 's/‼/!!/g' | \
sed 's/[♯＃]/#/g' | \
sed 's/♥//g'
}
archive() {
echo "##"
echo "## archive $1"
echo "##"
local m2ts="$1"
local mp4="$(get_mp4_name "$m2ts")"
local log="$(get_log_name "$m2ts")"
local tmpdir="$TMP/$(head -c 7 /dev/urandom | xxd -p)"
mkdir -pv "$tmpdir"
# wait some micro secs each file read
time "$SPLIT" -OUT "$tmpdir" -WAIT,3 "$m2ts"
ls -S "$tmpdir"/* | tail -n +2 | xargs rm -fv
local extracted="$(ls -S "$tmpdir"/* | head -n1)"
time "$CONVERT" "$extracted" "$mp4"
rm -frv "$tmpdir"
}
get_mp4_name() {
printf "$(prefix "$1").mp4"
}
get_log_name() {
printf "$(prefix "$1").log"
}
prefix() {
printf "${1%.*}"
}
main
|
kui/dotfiles
|
bin/archive-ts.sh
|
Shell
|
unlicense
| 1,738 |
#!/bin/bash
readonly program="${1}"
shift
i=0
for arg in "${@}"; do
if [[ -e "${arg}" ]]; then
arg="$(cygpath -w "${arg}")"
fi
args["${i}"]="${arg}"
((i++))
done
"${program}" "${args[@]}"
|
ntsuji/cygcmd
|
cygcmd.sh
|
Shell
|
unlicense
| 200 |
#! /bin/bash
function print_success {
arg1=$1
printf "%s \e[0;32m[✔]\e[0m\n" "${arg1}"
}
function print_success_bold {
arg1=$1
bold=$(tput bold)
printf "\n\n${bold}\e[0;32m%s\e[0m" "${arg1}"
printf "\e[0;32m..........................................\e[0m"
printf "\e[0;32m[✔]\e[0m\n"
}
function fancy_print {
arg1=$1
bold=$(tput bold)
printf "\n\n${bold}%s...............\n\n" "${arg1}"
}
|
lfiolhais/dotfiles
|
script/utilities.sh
|
Shell
|
unlicense
| 416 |
#!/bin/bash -x
#
# Generated - do not edit!
#
# Macros
TOP=`pwd`
CND_PLATFORM=MinGW-Windows
CND_CONF=Release
CND_DISTDIR=dist
CND_BUILDDIR=build
CND_DLIB_EXT=dll
NBTMPDIR=${CND_BUILDDIR}/${CND_CONF}/${CND_PLATFORM}/tmp-packaging
TMPDIRNAME=tmp-packaging
OUTPUT_PATH=${CND_DISTDIR}/${CND_CONF}/${CND_PLATFORM}/libesx-reader.a
OUTPUT_BASENAME=libesx-reader.a
PACKAGE_TOP_DIR=ESx-Reader/
# Functions
function checkReturnCode
{
rc=$?
if [ $rc != 0 ]
then
exit $rc
fi
}
function makeDirectory
# $1 directory path
# $2 permission (optional)
{
mkdir -p "$1"
checkReturnCode
if [ "$2" != "" ]
then
chmod $2 "$1"
checkReturnCode
fi
}
function copyFileToTmpDir
# $1 from-file path
# $2 to-file path
# $3 permission
{
cp "$1" "$2"
checkReturnCode
if [ "$3" != "" ]
then
chmod $3 "$2"
checkReturnCode
fi
}
# Setup
cd "${TOP}"
mkdir -p ${CND_DISTDIR}/${CND_CONF}/${CND_PLATFORM}/package
rm -rf ${NBTMPDIR}
mkdir -p ${NBTMPDIR}
# Copy files and create directories and links
cd "${TOP}"
makeDirectory "${NBTMPDIR}/ESx-Reader/lib"
copyFileToTmpDir "${OUTPUT_PATH}" "${NBTMPDIR}/${PACKAGE_TOP_DIR}lib/${OUTPUT_BASENAME}" 0644
# Generate tar file
cd "${TOP}"
rm -f ${CND_DISTDIR}/${CND_CONF}/${CND_PLATFORM}/package/ESx-Reader.tar
cd ${NBTMPDIR}
tar -vcf ../../../../${CND_DISTDIR}/${CND_CONF}/${CND_PLATFORM}/package/ESx-Reader.tar *
checkReturnCode
# Cleanup
cd "${TOP}"
rm -rf ${NBTMPDIR}
|
Koncord/ESx-Reader
|
nbproject/Package-Release.bash
|
Shell
|
apache-2.0
| 1,474 |
#!/usr/bin/env bash
if [[ ! -x "../${PWD##*/}/gradlew" ]]; then
echo "Please run me from the WebdavBulkDeleter Git repo"
exit 1
fi
type -p java &>/dev/null
if (( $? != 0 )); then
echo "No \"java\" command in path - please add the java JRE or JDK \"bin\" directory to your path variable"
exit 1
fi
binary="build/libs/WebdavBulkDeleter-all.jar"
if [[ ! -f "$binary" ]]; then
./gradlew shadowJar
fi
java -Dlog4j.configuration=log4j.properties -jar "$binary" $@
|
ftclausen/WebdavBulkDeleter
|
webdavbulkdeleter.sh
|
Shell
|
apache-2.0
| 483 |
docker build -t tstromberg/chrome .
|
tstromberg/dockerfiles
|
chrome/build.sh
|
Shell
|
apache-2.0
| 36 |
#!/bin/sh
_LS_SOURCE=$(dirname "${0}")
if [[ "${_LS_SOURCE}" = "." ]]; then
_LS_SOURCE=$(dirname "${PWD}")
elif [[ -z "$(echo ${_LS_SOURCE} | grep "^/" 2> /dev/null)" ]]; then
_LS_SOURCE="${PWD}"
else
_LS_SOURCE=$(dirname "${_LS_SOURCE}")
fi
_LS_SOURCE=$(dirname "${_LS_SOURCE}")
_LS_SOURCE=$(dirname "${_LS_SOURCE}")
LS_SOURCE=$(dirname "${_LS_SOURCE}")
export LS_SOURCE
## DISTRO SPECIFIC PART
LS_DISTRO="Solaris"
# lightstreamer is too long
LS_GROUP="lights"
LS_USER="lights"
LS_USERADD_HOME=/
export LS_DISTRO LS_GROUP LS_USER LS_USERADD_HOME
## END: DISTRO SPECIFIC PART
. "${LS_SOURCE}/bin/unix-like/install/common.inc"
# Override defaults in common.inc
SOURCE_INIT_DIR="${LS_SOURCE}/bin/unix-like/install/${LS_DISTRO}/init"
INIT_PATH="/lib/svc/method/http-lightstreamer"
MANIFEST_PATH="/lib/svc/manifest/network/http-lightstreamer.xml"
INIT_DIR=$(basename "${INIT_PATH}")
copy_init_script() {
local manifest_name=$(basename "${MANIFEST_PATH}")
local method_name=$(basename "${INIT_PATH}")
cp -p "${SOURCE_INIT_DIR}/${manifest_name}" "${MANIFEST_PATH}" || return 1
cp -p "${SOURCE_INIT_DIR}/${method_name}" "${INIT_PATH}" || return 1
}
setup_init_script_perms() {
chmod 555 "${INIT_PATH}" || return 1
chmod 444 "${MANIFEST_PATH}" || return 1
}
add_service() {
if [ "${LS_ADD_SERVICE}" != "0" ]; then
local ls_serv="svc:/network/http:lightstreamer"
svcadm restart "svc:/system/manifest-import" "${ls_serv}" &> /dev/null
sleep 2
svcadm enable "${ls_serv}" &> /dev/null
echo "Init script installed at: ${INIT_PATH}"
echo "It is set to automatically start at boot (and is also now online)"
echo "You can restart Lightstreamer Server using:"
echo " svcadm restart ${ls_serv}"
fi
return 0
}
show_intro || exit 1
echo "Installing to ${LS_DESTDIR}..."
setup_user_group && \
copy_to_destdir && \
setup_init_script && \
add_service
|
asirnayeef23/fsm
|
bin/unix-like/install/Solaris/install.sh
|
Shell
|
apache-2.0
| 1,963 |
#!/bin/bash -e
RELEASE_DIR=`git rev-parse --show-toplevel`
cd $RELEASE_DIR
DEPLOYMENT=$1
if [[ -z $DEPLOYMENT ]]; then
DEPLOYMENT=templates/bosh-lite/bosh-lite.yml
fi
echo "Using stub $DEPLOYMENT"
mkdir -p tmp
DEPLOYMENT_FILE=`basename $DEPLOYMENT`
DEPLOYMENT_ENV=`basename $(dirname $DEPLOYMENT)`
MANIFEST_FILE=tmp/${DEPLOYMENT_FILE/stub/$DEPLOYMENT_ENV}
./scripts/make_manifest_spiff.sh $DEPLOYMENT $MANIFEST_FILE
sed -i '' '/persistent_disk:/d' $MANIFEST_FILE
|
apoydence/logradile
|
scripts/make_manifest_bosh_lite.sh
|
Shell
|
apache-2.0
| 471 |
#!/bin/bash
# 1) Shutdown Solr.
/home/$USER/solr_tomcat/apache-tomcat-7.0.32/bin/shutdown.sh
# 2) Move the existing data and conf into a sub-dir
mkdir /home/$USER/solr_tomcat/apache-solr-config/stories
mv /home/$USER/solr_tomcat/apache-solr-config/conf /home/$USER/solr_tomcat/apache-solr-config/stories
mv /home/$USER/solr_tomcat/apache-solr-config/data /home/$USER/solr_tomcat/apache-solr-config/stories
# 3) Create new directory for collections core
mkdir -p /home/$USER/solr_tomcat/apache-solr-config/collections/data
mkdir -p /home/$USER/solr_tomcat/apache-solr-config/collections/conf
# 4) Pre-populate configuration with existing config
cp -r /home/$USER/solr_tomcat/apache-solr-config/stories/conf/* /home/$USER/solr_tomcat/apache-solr-config/collections/conf
# 5) Update the base solr.xml file
cp /home/user/solr_tomcat/apache-solr-config/solr.xml /home/user/solr_tomcat/apache-solr-config/solr.xml.orig-single-core
cat << 'EOF' > /home/user/solr_tomcat/apache-solr-config/solr.xml
<?xml version="1.0" encoding="UTF-8" ?>
<!--
Licensed to the Apache Software Foundation (ASF) under one or more
contributor license agreements. See the NOTICE file distributed with
this work for additional information regarding copyright ownership.
The ASF licenses this file to You under the Apache License, Version 2.0
(the "License"); you may not use this file except in compliance with
the License. You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.
-->
<!--
This is an example of a simple "solr.xml" file for configuring one or
more Solr Cores, as well as allowing Cores to be added, removed, and
reloaded via HTTP requests.
More information about options available in this configuration file,
and Solr Core administration can be found online:
http://wiki.apache.org/solr/CoreAdmin
-->
<!--
All (relative) paths are relative to the installation path
persistent: Save changes made via the API to this file
sharedLib: path to a lib directory that will be shared across all cores
-->
<solr persistent="false">
<!--
adminPath: RequestHandler path to manage cores.
If 'null' (or absent), cores will not be manageable via request handler
-->
<cores adminPath="/admin/cores" defaultCoreName="collection1">
<core name="stories" instanceDir="./stories" />
<core name="collections" instanceDir="./collections" />
</cores>
</solr>
EOF
#6) Run the reindex to get the new core initialized
/home/$USER/main/tool/start_solr.sh
/home/$USER/main/tool/reindex.sh
|
stori-es/stori_es
|
tool/update_solr.sh
|
Shell
|
apache-2.0
| 2,856 |
#!/bin/sh
export DEPLIB=target/dependency
export JAVA_HOME=/Library/Java/JavaVirtualMachines/1.7.0.jdk/Contents/Home
export JVMFLAGS="-server -Dgameserver -XX:+HeapDumpOnOutOfMemoryError -XX:MaxPermSize=256m -mx1024m -Dusefakesender=false"
export JVMFLAGS="-server"
export GSBINDIR=/Users/wangqi/disk/projects/snsgames/babywar/server/deploy
export GSMAIN="com.xinqihd.sns.gameserver.bootstrap.Bootstrap"
export PORT=3443
export HTTPPORT=8080
export ZOO=192.168.0.77
#$JAVA_HOME/bin/java $JVMFLAGS -Dfile.encoding=utf8 -cp target/bootstrap.jar com.xinqihd.sns.gameserver.bootstrap.Bootstrap -t zoo -h 192.168.0.77 -p 3443 -http 8080 -httphost 192.168.0.77 -d ../deploy/data -s ../deploy/script -u ../babywarserver/target/classes
$JAVA_HOME/bin/java $JVMFLAGS -Duserdir=../deploy -Dconfigdir=. -Dfile.encoding=utf8 -cp target/bootstrap.jar com.xinqihd.sns.gameserver.bootstrap.Bootstrap -t zoo -h 192.168.0.77 -p 3443 -http 8080 -httphost 192.168.0.77 -d ../deploy/data -s ../deploy/script -u ../deploy/babywarserver.jar
|
wangqi/gameserver
|
bootstrap/startboot.sh
|
Shell
|
apache-2.0
| 1,021 |
# WARNING: This file is managed by Salt.
# Modify sources to keep changes persistent.
###############################################################################
export EDITOR="vim"
###############################################################################
{% if grains['os_platform_type'].startswith('rhel5') %}
# Add `/sbin` and `/usr/sbin` to `PATH` for commands
# like `ip`, `service`, `tcpdump`, etc.
export PATH="${PATH}:/sbin:/usr/sbin"
{% endif %}
###############################################################################
# Set variable to indicate which pillar profile is used.
{% set profile_name = pillar['properties']['profile_name'] %}
export SALT_PROFILE_NAME="{{ profile_name }}"
###############################################################################
{% set proxy_config = pillar['system_features']['external_http_proxy'] %}
{% if proxy_config['feature_enabled'] %}
# Proxy settings:
# TODO: Use `secret_id` from `system_secrets` for `password_value`.
export http_proxy='{{ proxy_config['proxy_url_schema'] }}{{ proxy_config['proxy_username'] }}:{{ pillar['system_secrets'][ proxy_config['proxy_password_secret_id'] ] }}@{{ proxy_config['proxy_url_hostname'] }}:{{ proxy_config['proxy_url_port'] }}/'
export https_proxy="${http_proxy}"
{% endif %}
###############################################################################
{% if pillar['system_features']['assign_DISPLAY_environment_variable'] %}
# Use role's host (which should be part of DNS or any host resolution method).
# If current minion is among assigned hosts for `primary_console_role`,
# use only `:0.0`.
{% if grains['id'] in pillar['system_host_roles']['primary_console_role']['assigned_hosts'] %}
{% set x_display_server = '' %}
{% else %}
{% set x_display_server = pillar['system_host_roles']['primary_console_role']['hostname'] %}
{% endif %}
if [ -n "$DISPLAY" ]
then
# If stdin is not tty, do not print anything.
if [ -t 1 ]
then
# Avoid setting DISPLAY if you use SSH.
# Use automatic X forwarding for SSH instead.
echo -n "Reusing: DISPLAY=$DISPLAY " 1>&2
echo "SSH X port forwarding." 1>&2
fi
else
export DISPLAY="{{ x_display_server }}:0.0"
# If stdin is not tty, do not print anything.
if [ -t 1 ]
then
echo -n "Setting: DISPLAY=$DISPLAY " 1>&2
# Display hint only if `x_display_server` contains any hostname.
if [ -n '{{ x_display_server }}' ]
then
echo "If \`{{ x_display_server }}\` is not resolvable, set IP address in \`/etc/hosts\`." 1>&2
else
echo "Using local graphical environment." 1>&2
fi
fi
fi
{% endif %}
###############################################################################
# Add timestamps to bash history.
export HISTTIMEFORMAT="%y-%m-%dT%T "
###############################################################################
# EOF
###############################################################################
|
uvsmtid/common-salt-states
|
states/common/shell/variables/common.custom.variables.sh
|
Shell
|
apache-2.0
| 3,023 |
#!/bin/bash -eux
yum -y erase gtk2 libX11 hicolor-icon-theme avahi freetype bitstream-vera-fonts
yum -y clean all
rm -rf VBoxGuestAdditions_*.iso
|
chef/basebox
|
.centos/cleanup.sh
|
Shell
|
apache-2.0
| 146 |
tclsh graph_size.tcl metis_flash_4GB_i26.log metis_15000_RAID1_4GB_i26.log kredit_RAID_32GB_i26.log pc990_2GB_i26.log appetizer
tclsh graph_size.tcl metis_flash_8GB_i26.log metis_flash_4GB_i26.log metis_flash_2GB_i26.log metis_15000_RAID1_8GB_i26.log metis_15000_RAID1_4GB_i26.log metis_15000_RAID1_2GB_i26.log SSD_RAM
tclsh graph_size.tcl metis_flash_8GB_i26.log metis_flash_4GB_i26.log metis_15000_RAID1_8GB_i26.log metis_15000_RAID1_4GB_i26.log pc990_2GB_i26.log appetizer
# Index-size is for 4GB RAM
gnuplot index_size.pl
tclsh graph_size.tcl metis_flash_2GB_i9_1.log metis_flash_2GB_i9_2.log metis_flash_2GB_i9_1s.log metis_flash_2GB_i9_2s.log SSD_Simultaneous
# Threading
tclsh graph_size.tcl metis_15000_RAID1_8GB_i37_t1.log metis_15000_RAID1_8GB_i37_t2.log metis_15000_RAID1_8GB_i37_t4.log harddisk_threading
tclsh graph_size.tcl metis_flash_RAID0_8GB_i37_t1.log metis_flash_RAID0_8GB_i37_t2.log metis_flash_RAID0_8GB_i37_t4.log ssd_threading
# Multiple searchers
tclsh graph_size.tcl -ymax 500 metis_flash_RAID0_8GB_i37_t1_l21.log metis_flash_RAID0_8GB_i37_t2_l21.log metis_flash_RAID0_8GB_i37_t3_l21.log metis_flash_RAID0_8GB_i37_t4_l21.log metis_15000_RAID1_8GB_i37_t1_l21.log metis_15000_RAID1_8GB_i37_t2_l21.log metis_15000_RAID1_8GB_i37_t3_l21.log metis_15000_RAID1_8GB_i37_t4_l21.log threads_shared_searcher_21
tclsh graph_size.tcl -ymax 500 metis_15000_RAID1_8GB_i37_t1_l21.log metis_15000_RAID1_8GB_i37_t2u_l21.log metis_15000_RAID1_8GB_i37_t3u_l21.log metis_15000_RAID1_8GB_i37_t4u_l21.log threads_harddisk_unique_21
tclsh graph_size.tcl -ymax 500 metis_flash_RAID0_8GB_i37_t1_l21.log metis_flash_RAID0_8GB_i37_t2u_l21.log metis_flash_RAID0_8GB_i37_t3u_l21.log metis_flash_RAID0_8GB_i37_t4u_l21.log threads_ssd_unique_21
tclsh graph_size.tcl -ymax 500 metis_flash_RAID0_8GB_i37_t1_l22.log metis_flash_RAID0_8GB_i37_t2_l22.log metis_flash_RAID0_8GB_i37_t3_l22.log metis_flash_RAID0_8GB_i37_t4_l22.log metis_15000_RAID1_8GB_i37_t1_l22.log metis_15000_RAID1_8GB_i37_t2_l22.log metis_15000_RAID1_8GB_i37_t3_l22.log metis_15000_RAID1_8GB_i37_t4_l22.log threads_shared_searcher_22
tclsh graph_size.tcl -ymax 500 metis_15000_RAID1_8GB_i37_t1_l22.log metis_15000_RAID1_8GB_i37_t2u_l22.log metis_15000_RAID1_8GB_i37_t3u_l22.log metis_15000_RAID1_8GB_i37_t4u_l22.log threads_harddisk_unique_22
tclsh graph_size.tcl -ymax 500 metis_flash_RAID0_8GB_i37_t1_l22.log metis_flash_RAID0_8GB_i37_t2u_l22.log metis_flash_RAID0_8GB_i37_t3u_l22.log metis_flash_RAID0_8GB_i37_t4u_l22.log threads_ssd_unique_22
tclsh graph_size.tcl -ymax 500 metis_flash_RAID0_8GB_i37_t1_l23.log metis_flash_RAID0_8GB_i37_t2_l23.log metis_flash_RAID0_8GB_i37_t3_l23.log metis_flash_RAID0_8GB_i37_t4_l23.log metis_15000_RAID1_8GB_i37_t1_l23.log metis_15000_RAID1_8GB_i37_t2_l23.log metis_15000_RAID1_8GB_i37_t3_l23.log metis_15000_RAID1_8GB_i37_t4_l23.log threads_shared_searcher_23
tclsh graph_size.tcl -ymax 500 metis_15000_RAID1_8GB_i37_t1_l23.log metis_15000_RAID1_8GB_i37_t2u_l23.log metis_15000_RAID1_8GB_i37_t3u_l23.log metis_15000_RAID1_8GB_i37_t4u_l23.log threads_harddisk_unique_23
tclsh graph_size.tcl -ymax 500 metis_flash_RAID0_8GB_i37_t1_l23.log metis_flash_RAID0_8GB_i37_t2u_l23.log metis_flash_RAID0_8GB_i37_t3u_l23.log metis_flash_RAID0_8GB_i37_t4u_l23.log threads_ssd_unique_23
# Lucene versions
tclsh graph_size.tcl -ymax 1000 metis_flash_RAID0_8GB_i37_t2_l21.log metis_flash_RAID0_8GB_i37_t2_l22.log metis_flash_RAID0_8GB_i37_t2_l23.log metis_flash_RAID0_8GB_i37_t3_l21.log metis_flash_RAID0_8GB_i37_t3_l22.log metis_flash_RAID0_8GB_i37_t3_l23.log metis_flash_RAID0_8GB_i37_t3u_l21.log metis_flash_RAID0_8GB_i37_t3u_l22.log metis_flash_RAID0_8GB_i37_t3u_l23.log versions_ssd
tclsh graph_size.tcl -ymax 1000 metis_15000_RAID1_8GB_i37_t2_l21.log metis_15000_RAID1_8GB_i37_t2_l22.log metis_15000_RAID1_8GB_i37_t2_l23.log metis_15000_RAID1_8GB_i37_t3_l21.log metis_15000_RAID1_8GB_i37_t3_l22.log metis_15000_RAID1_8GB_i37_t3_l23.log metis_15000_RAID1_8GB_i37_t3u_l21.log metis_15000_RAID1_8GB_i37_t3u_l22.log metis_15000_RAID1_8GB_i37_t3u_l23.log versions_harddisk
# Warmup
tclsh graph_size.tcl -xmin 1 -xmax 340000 -ymax 1000 -xlogscale -smooth false metis_15000_RAID1_8GB_i37_t2_l21.log metis_15000_RAID1_8GB_i37_t3u_l21.log metis_flash_RAID0_8GB_i37_t2_l21.log metis_flash_RAID0_8GB_i37_t3u_l21.log warming_21
tclsh graph_size.tcl -xmin 1 -xmax 340000 -ymax 1000 -xlogscale -smooth false metis_15000_RAID1_8GB_i37_t2_l23.log metis_15000_RAID1_8GB_i37_t3u_l23.log metis_flash_RAID0_8GB_i37_t2_l23.log metis_flash_RAID0_8GB_i37_t3u_l23.log warming_23
|
statsbiblioteket/summa
|
Core/scripts/performance/report_graphs.sh
|
Shell
|
apache-2.0
| 4,577 |
#!/bin/bash
export JAVA_OPTS="-XX:+CMSClassUnloadingEnabled -XX:MaxMetaspaceSize=1G -XX:MetaspaceSize=256M -Xms8G -Xmx8G"
sbt
|
dnvriend/activiti-test
|
helloworld/sbt-test.sh
|
Shell
|
apache-2.0
| 126 |
#!/bin/bash
# Hard Drive Burn-In Testing
# As seen here:
# https://forums.freenas.org/index.php?threads/how-to-hard-drive-burn-in-testing.21451/
# Isolate the available disks
camcontrol devlist
# Isolate the names of the disks
#TODO: extract the adax device
camcontrol devlist | awk '{print $10}'
# Run short tests
smartctl -t short /dev/ada0
smartctl -t short /dev/ada1
smartctl -t short /dev/ada2
smartctl -t short /dev/ada3
smartctl -t short /dev/ada4
smartctl -t short /dev/ada5
# Run conveyance tests
smartctl -t conveyance /dev/ada0
smartctl -t conveyance /dev/ada1
smartctl -t conveyance /dev/ada2
smartctl -t conveyance /dev/ada3
smartctl -t conveyance /dev/ada4
smartctl -t conveyance /dev/ada5
# Run long tests
smartctl -t long /dev/ada0
smartctl -t long /dev/ada1
smartctl -t long /dev/ada2
smartctl -t long /dev/ada3
smartctl -t long /dev/ada4
smartctl -t long /dev/ada5
# Check the results
smartctl -a /dev/ada0
smartctl -a /dev/ada1
smartctl -a /dev/ada2
smartctl -a /dev/ada3
smartctl -a /dev/ada4
smartctl -a /dev/ada5
# Enable kernel geoometry flags
sysctl kern.geom.debugflags=0x10
# Run the badblocks test
badblocks -b 4096 -ws /dev/ada0
badblocks -b 4096 -ws /dev/ada1
badblocks -b 4096 -ws /dev/ada2
badblocks -b 4096 -ws /dev/ada3
badblocks -b 4096 -ws /dev/ada4
badblocks -b 4096 -ws /dev/ada5
|
anonymuse/stowery
|
smart_check.sh
|
Shell
|
apache-2.0
| 1,328 |
#!/bin/bash
#
# -- Run as: ./run_intensity_range_test_evenness_scaling.sh 1> test_output/stdout.txt 2> test_output/stderr.txt
#
errecho(){ >&2 echo $@; }
# Declare test ranges:
declare -a range_intensities=$(seq 0.25 0.25 5) #("1.25") #$(seq 3 90) #e.g. ("44" "45")
# Declare test output location:
result_set="test_output/Intensity_Results_RangeTest_"$(date -d "today" +"%Y-%m-%d_%H")"-00"
relative_result_path_from_run="exp/Evenness_Scaling/"
# Specify properties file location(s).
default_properties_filename="../../properties/default.properties"
pre_default_properties_filename=$default_properties_filename".pre-"${result_set//\//-}
post_default_properties_filename=$default_properties_filename".post-"${result_set//\//-}
function pre_test_file_organisation(){
# Prep File Organisation & properties file backup:
mkdir -p $result_set
cp -n $default_properties_filename $pre_default_properties_filename
}
function post_test_file_organisation(){
# Backup the finished properties file into $post_default_properties_filename. (ensure there's a backup)
cp -b $default_properties_filename $post_default_properties_filename
# Restore the original properties file: (force)
cp -f $pre_default_properties_filename $default_properties_filename
}
function update_properties_file_output_directory(){
# Update the run.py evaluation results directory, by modifying the default.properties file:
python helpers/update_default-properties_file.py "DO_OVERWRITE" $default_properties_filename "results_file.results_output_file_path_prefix=" "$relative_result_path_from_run""$result_set""/"
}
function run_range_test(){
for n in $range_intensities
do
./run_intensity_evenness_scaling_trial.sh $n
if [ $? -ne 0 ]; then
errecho ""; errecho " -------------- "
errecho "run_intensity_evenness_scaling_trial.sh failed."
errecho "Exiting."
exit 1;
fi
done
}
function main(){
pre_test_file_organisation
update_properties_file_output_directory
run_range_test
post_test_file_organisation
}
main
|
LightStage-Aber/LightStage-Repo
|
exp/Evenness_Scaling/run_intensity_range_test_evenness_scaling.sh
|
Shell
|
apache-2.0
| 2,115 |
#!/bin/bash -eu
# file: mw.sh
function init {
bundle
rake db:schema:load
rake db:migrate
rake fake_data
}
function run {
sv exit watson # no need for this on here
exec rails server
}
command=$1
cd /usr/src/service
if [ "$command" = "init" ]; then
init
elif [ "$command" = "run" ]; then
run
else
echo "unknown command (name: $command)"
exit 1
fi
|
datawire/microwizard
|
src/lobsters/microwizard/mw.sh
|
Shell
|
apache-2.0
| 369 |
node pollerHost.js --site 9E7A --site C877
|
KRMAssociatesInc/eHMP
|
ehmp/product/production/osync/run-pollerHost.sh
|
Shell
|
apache-2.0
| 42 |
# Retrieve index settings
curl -XGET "http://localhost:9200/conference/_settings?pretty"
# Create index with single shard
curl -XPUT "http://localhost:9200/single_shard_index/" -d'
{
"settings": {
"number_of_shards": 1
}
}'
# Adjust number of replicas
curl -XPUT "http://localhost:9200/single_shard_index/_settings" -d'
{
"settings": {
"number_of_replicas": 2
}
}'
# Install Kopf (this is an older version)
bin/plugin --install lmenezes/elasticsearch-kopf/1.2
# Adjust number of replicas
curl -XPUT "http://localhost:9200/conference/_settings" -d'
{
"settings": {
"number_of_replicas": 2
}
}'
# Reset number of replicas
curl -XPUT "http://localhost:9200/conference/_settings" -d'
{
"settings": {
"number_of_replicas": 1
}
}'
# Wait for cluster health yellow
curl -XGET 'http://localhost:9200/_cluster/health?wait_for_status=yellow&timeout=60s'
# Show current recovery
curl -XGET "http://localhost:9200/_recovery?pretty=true"
# Add tag to index setting
curl -XPUT "http://localhost:9200/conference/_settings" -d'
{
"index.routing.allocation.include.tag" : "strong-machine"
}'
# Prefer local shards
curl -XGET "http://localhost:9200/conference/talk/_search?q=elasticsearch&preference=_local"
# Add document with routing
curl -XPOST "http://localhost:9200/conference/talk/1?routing=Karlsruhe" -d'
{
"title": "Search-Driven Applications",
"conference": {
"name": "Entwicklertag",
"city": "Karlsruhe"
}
}'
# Search with routing
curl -XPOST "http://localhost:9200/conference/talk/_search?routing=Karlsruhe" -d'
{
"query": {
"filtered": {
"query": {
"match": {
"title": "search"
}
},
"filter": {
"term": {
"conference.city": "karlsruhe"
}
}
}
}
}'
# Retrieve cluster state
curl -XGET "http://localhost:9200/_cluster/state?pretty"
# Update minimum master nodes
curl -XPUT "http://localhost:9200/_cluster/settings" -d'
{
"persistent": {
"discovery.zen.minimum_master_nodes": 3
}
}'
# Index with consistency setting
curl -XPOST "http://localhost:9200/conference2/talk?consistency=one" -d'
{
"title": "What to do when there are not enough shards"
}'
|
fhopf/elasticsearch-book-examples
|
06.sh
|
Shell
|
apache-2.0
| 2,313 |
#!/bin/csh
# Author James Dempsey
# Date 27 Jun 2016
# Calibrate the data using
# 1934-638 as the flux and bandpass cal and
# 0727-115, 0823-500, 1049-53 as the phase cals.
# Process the flux and bandpass cal
mfcal vis=1934-638.1420 options=interpolate
gpcal vis=1934-638.1420 options=xyvary
# Process each phase cal
foreach calnam (0727-115 0823-500 1049-53)
#foreach srcnam (347.817+0.018 347.902+0.052 348.195+0.768)
echo "##--## Processing phase cal ${calnam} ##--##"
gpcopy vis=1934-638.1420 out=${calnam}.1420
gpcal vis=${calnam}.1420 options=xyvary,qusolv
gpboot vis=${calnam}.1420 cal=1934-638.1420
mfboot vis=${calnam}.1420,1934-638.1420 "select=source(1934-638)"
echo "#### Validation ####"
uvflux vis=1934-638.1420 stokes=i,q,u,v
uvflux vis=${calnam}.1420 stokes=i,q,u,v
uvplt vis=${calnam}.1420 stokes=i,q,u,v axis=real,imag options=equal,nobase device=/xs
echo "gpplt vis=${calnam}.1420 device=/xs yaxis=phase options=xygains"
end
|
jd-au/magmo-HI
|
prototypes/calibrate.sh
|
Shell
|
apache-2.0
| 971 |
#!/usr/bin/env bash
sudo docker cp ../generated/skysail.app.bookmarks.jar skysail-server:/home/skysail/products/demo/plugins/skysail.app.bookmarks.jar
|
evandor/skysail-core
|
skysail.app.bookmarks/deploy/deploy2skysail-server.sh
|
Shell
|
apache-2.0
| 152 |
#!/usr/bin/env bash
set -eu
dotnet restore
dotnet build
# Tests
|
r-ralph/Diamond
|
build.sh
|
Shell
|
apache-2.0
| 65 |
#!/bin/bash
function usage {
echo "Deploy Queue application to cluster."
echo "Usage: $0 -m host:port -t tag"
echo " host:port : Marathon REST API endpoint for discovery"
echo " tag : Docker image tag"
}
host_port=""
tag=""
# Optional arguments
OPTIND=1
while getopts "m:t:h:" opt; do
case $opt in
m)
host_port=$OPTARG
;;
t)
tag=$OPTARG
;;
h)
usage ; exit 0
;;
\?)
echo "Invalid option: -$OPTARG" >&2
usage ; exit 1
;;
esac
done
# Remove optional arguments
shift $(($OPTIND - 1))
if [ -z "$host_port" ]; then
echo "Marathon host:port not specified" >&2
usage ; exit 1
fi
if [ -z "$tag" ]; then
echo "Docker tag not specified" >&2
usage ; exit 1
fi
sed "s/{{TAGNAME}}/$tag/" queue-app.json | \
curl -X POST -H "Content-Type: application/json" "http://$host_port/v2/apps" -d@-
|
sirca/bdkd_datastore
|
subprojects/samples/laser/cluster_pe/components/queue/deploy.sh
|
Shell
|
apache-2.0
| 854 |
#!/bin/bash
set -e
# set -x
C="$1"
shift
docker=${docker:-docker}
EXIT=false
if ! $docker exec $C ipa-server-install -U -r EXAMPLE.TEST -p Secret123 -a Secret123 --setup-dns --no-forwarders --no-ntp ; then
EXIT=true
fi
FAILED=$( $docker exec $C systemctl list-units --state=failed --no-pager -l --no-legend | tee /dev/stderr | sed 's/ .*//' | sort )
for s in $FAILED ; do
$docker exec $C systemctl status $s --no-pager -l || :
done
if [ -n "$FAILED" ] ; then
EXIT=true
fi
if $EXIT ; then
exit 1
fi
$docker exec $C ls -la /var/log/ipaserver-install.log
MACHINE_ID=$( $docker exec $C cat /etc/machine-id )
if $docker exec $C test -d /data ; then
$docker exec $C ls -la /var/log/journal/$MACHINE_ID/system.journal
else
$docker exec $C ls -la /run/log/journal/$MACHINE_ID/system.journal
fi
echo OK $0.
|
freeipa/freeipa-container
|
tests/systemd-container-ipa-server-install.sh
|
Shell
|
apache-2.0
| 810 |
#!/bin/bash
# Define a bunch of functions and set a bunch of variables
TEST_DIR=$(readlink -f `dirname "${BASH_SOURCE[0]}"` | grep -o '.*/oshinko-s2i/test/e2e')
source $TEST_DIR/common
SCRIPT_DIR=$(readlink -f `dirname "${BASH_SOURCE[0]}"`)
source $SCRIPT_DIR/../../builddc
TEMPLATE_DIR=$(readlink -f `dirname "${BASH_SOURCE[0]}"` | grep -o '.*/oshinko-s2i')/templates
set_template $TEMPLATE_DIR/sparklyrdc.json
set_worker_count $S2I_TEST_WORKERS
# Clear these flags
set_fixed_app_name
os::test::junit::declare_suite_start "$MY_SCRIPT"
# Make the S2I test image if it's not already in the project
set_git_uri https://github.com/tmckayus/r-openshift-ex.git
make_image $S2I_TEST_IMAGE_SPARKLYR $GIT_URI
set_image $TEST_IMAGE
echo "++ dc_test_no_app_name"
dc_test_no_app_name
echo "++ test_exit"
test_exit
echo "++ test_cluster_name"
test_cluster_name
echo "++ test_del_cluster"
test_del_cluster
echo "++ test_app_args"
test_app_args
echo "++ test_pod_info"
test_podinfo
echo "++ test_named_config"
test_named_config
echo "++ test_driver_config"
test_driver_config
echo "++ test_spark_options"
test_spark_options
echo "++ test_driver_host"
test_driver_host
echo "++ test_no_source_or_image"
test_no_source_or_image
os::test::junit::declare_suite_end
|
rimolive/oshinko-s2i
|
test/e2e/templates/sparklyr/dc/sparklyrdc.sh
|
Shell
|
apache-2.0
| 1,265 |
ip netns exec qgw ip link set veth0 down
ip netns exec qgw ip link set lo down
ip link set dev qgw-veth0.t down
brctl delif vbr-pext qgw-veth0.t
ip link delete qgw-veth0.t
ip netns delete qgw
ip netns exec qhost1 ip link set veth0 down
ip netns exec qhost1 ip link set lo down
ip link set dev qhost1-veth0.t down
brctl delif vbr-pext qhost1-veth0.t
ip link delete qhost1-veth0.t
ip netns delete qhost1
ip link set dev vbr-pext down
brctl delbr vbr-pext
|
penguinwatcher/magnet
|
magnet/test/delete.1host-1gw.sh
|
Shell
|
apache-2.0
| 453 |
# -----------------------------------------------------------------------------
#
# Package : github.com/dgryski/go-sip13
# Version : v0.0.0-20190329191031-25c5027a8c7b
# Source repo : https://github.com/dgryski/go-sip13
# Tested on : RHEL 8.3
# Script License: Apache License, Version 2 or later
# Maintainer : BulkPackageSearch Automation <[email protected]>
#
# Disclaimer: This script has been tested in root mode on given
# ========== platform using the mentioned version of the package.
# It may not work as expected with newer versions of the
# package and/or distribution. In such case, please
# contact "Maintainer" of this script.
#
# ----------------------------------------------------------------------------
PACKAGE_NAME=github.com/dgryski/go-sip13
PACKAGE_VERSION=v0.0.0-20190329191031-25c5027a8c7b
PACKAGE_URL=https://github.com/dgryski/go-sip13
yum -y update && yum install -y nodejs nodejs-devel nodejs-packaging npm python38 python38-devel ncurses git jq wget gcc-c++
wget https://golang.org/dl/go1.16.1.linux-ppc64le.tar.gz && tar -C /bin -xf go1.16.1.linux-ppc64le.tar.gz && mkdir -p /home/tester/go/src /home/tester/go/bin /home/tester/go/pkg
export PATH=$PATH:/bin/go/bin
export GOPATH=/home/tester/go
OS_NAME=`python3 -c "os_file_data=open('/etc/os-release').readlines();os_info = [i.replace('PRETTY_NAME=','').strip() for i in os_file_data if i.startswith('PRETTY_NAME')];print(os_info[0])"`
export PATH=$GOPATH/bin:$PATH
export GO111MODULE=on
function test_with_master_without_flag_u(){
echo "Building $PACKAGE_PATH with master branch"
export GO111MODULE=auto
if ! go get -d -t $PACKAGE_NAME; then
echo "------------------$PACKAGE_NAME:install_fails-------------------------------------"
echo "$PACKAGE_VERSION $PACKAGE_NAME" > /home/tester/output/install_fails
echo "$PACKAGE_NAME | $PACKAGE_VERSION | master | $OS_NAME | GitHub | Fail | Install_Fails" > /home/tester/output/version_tracker
exit 0
else
cd $(ls -d $GOPATH/pkg/mod/$PACKAGE_NAME*)
echo "Testing $PACKAGE_PATH with master branch without flag -u"
# Ensure go.mod file exists
go mod init
if ! gi test ./...; then
echo "------------------$PACKAGE_NAME:install_success_but_test_fails---------------------"
echo "$PACKAGE_VERSION $PACKAGE_NAME" > /home/tester/output/test_fails
echo "$PACKAGE_NAME | $PACKAGE_VERSION | master | $OS_NAME | GitHub | Fail | Install_success_but_test_Fails" > /home/tester/output/version_tracker
exit 0
else
echo "------------------$PACKAGE_NAME:install_&_test_both_success-------------------------"
echo "$PACKAGE_VERSION $PACKAGE_NAME" > /home/tester/output/test_success
echo "$PACKAGE_NAME | $PACKAGE_VERSION | master | $OS_NAME | GitHub | Pass | Both_Install_and_Test_Success" > /home/tester/output/version_tracker
exit 0
fi
fi
}
function test_with_master(){
echo "Building $PACKAGE_PATH with master"
export GO111MODULE=auto
if ! go get -d -u -t $PACKAGE_NAME@$PACKAGE_VERSION; then
test_with_master_without_flag_u
exit 0
fi
cd $(ls -d $GOPATH/pkg/mod/$PACKAGE_NAME*)
echo "Testing $PACKAGE_PATH with $PACKAGE_VERSION"
# Ensure go.mod file exists
go mod init
if ! go test ./...; then
test_with_master_without_flag_u
exit 0
else
echo "------------------$PACKAGE_NAME:install_&_test_both_success-------------------------"
echo "$PACKAGE_VERSION $PACKAGE_NAME" > /home/tester/output/test_success
echo "$PACKAGE_NAME | $PACKAGE_VERSION | $PACKAGE_VERSION | $OS_NAME | GitHub | Pass | Both_Install_and_Test_Success" > /home/tester/output/version_tracker
exit 0
fi
}
function test_without_flag_u(){
echo "Building $PACKAGE_PATH with $PACKAGE_VERSION and without -u flag"
if ! go get -d -t $PACKAGE_NAME@$PACKAGE_VERSION; then
test_with_master
exit 0
fi
cd $(ls -d $GOPATH/pkg/mod/$PACKAGE_NAME*)
echo "Testing $PACKAGE_PATH with $PACKAGE_VERSION"
# Ensure go.mod file exists
go mod init
if ! go test ./...; then
test_with_master
exit 0
else
echo "------------------$PACKAGE_NAME:install_&_test_both_success-------------------------"
echo "$PACKAGE_VERSION $PACKAGE_NAME" > /home/tester/output/test_success
echo "$PACKAGE_NAME | $PACKAGE_VERSION | $PACKAGE_VERSION | $OS_NAME | GitHub | Pass | Both_Install_and_Test_Success" > /home/tester/output/version_tracker
exit 0
fi
}
echo "Building $PACKAGE_PATH with $PACKAGE_VERSION"
if ! go get -d -u -t $PACKAGE_NAME@$PACKAGE_VERSION; then
test_without_flag_u
exit 0
fi
cd $(ls -d $GOPATH/pkg/mod/$PACKAGE_NAME*)
echo "Testing $PACKAGE_PATH with $PACKAGE_VERSION"
# Ensure go.mod file exists
go mod init
if ! go test ./...; then
test_with_master
exit 0
else
echo "------------------$PACKAGE_NAME:install_&_test_both_success-------------------------"
echo "$PACKAGE_VERSION $PACKAGE_NAME" > /home/tester/output/test_success
echo "$PACKAGE_NAME | $PACKAGE_VERSION | $PACKAGE_VERSION | $OS_NAME | GitHub | Pass | Both_Install_and_Test_Success" > /home/tester/output/version_tracker
exit 0
fi
|
ppc64le/build-scripts
|
g/github.com__dgryski__go-sip13/github.com__dgryski__go-sip13_rhel_8.3.sh
|
Shell
|
apache-2.0
| 5,121 |
#!/bin/bash
# This script will monitor the KBread/sec &KBwriten/sec of Disk.
# Creater: CCC IT loren ext:2288 2005/8/3
# As sda ,sdb,sdc,sdd,hda.
# disk=sda
network=`sar -n DEV | egrep -v 'IFACE|lo|^$|Linux' | awk '{print $2,$5,$6}' | uniq`
Interface=`echo $network |awk '{print $1}'`
KBinput_sec=`echo $network |awk '{print $2}'`
KBoutput_sec=`echo $network |awk '{print $3}'`
echo "$KBinput_sec"
echo "$KBoutput_sec"
echo "$Interface"
|
lichengshuang/createvhost
|
others/mrtg/shell/net.sh
|
Shell
|
apache-2.0
| 439 |
cd compose;go test;cd ..
cd actors/eureka;go test;cd ../..
cd actors/priamCassandra;go test;cd ../..
cd tooling/archaius;go test;cd ../..
cd tooling/architecture;go test;cd ../..
cd tooling/dhcp;go test;cd ../..
cd tooling/flow;go test;cd ../..
cd tooling/gotocol;go test;cd ../..
cd tooling/graphjson;go test;cd ../..
cd tooling/names;go test;cd ../..
cd tooling/ribbon;go test;cd ../..
cd tooling/usl;go test;cd ../..
|
jwatson0/spigo
|
misc/test.sh
|
Shell
|
apache-2.0
| 420 |
#!/bin/bash
HADOOP_DIR=../hadoop-2.4.1-src
rm -rf $HADOOP_DIR/hadoop-common-project/hadoop-annotations;cp -r hadoop-annotations $HADOOP_DIR/hadoop-common-project/;
rm -rf $HADOOP_DIR/hadoop-common-project/hadoop-auth;cp -r hadoop-auth $HADOOP_DIR/hadoop-common-project/;
rm -rf $HADOOP_DIR/hadoop-common-project/hadoop-common;cp -r hadoop-common $HADOOP_DIR/hadoop-common-project/;
rm -rf $HADOOP_DIR/hadoop-common-project/hadoop-minikdc;cp -r hadoop-minikdc $HADOOP_DIR/hadoop-common-project/;
rm -rf $HADOOP_DIR/hadoop-hdfs-project/hadoop-hdfs; cp -r hadoop-hdfs $HADOOP_DIR/hadoop-hdfs-project/;
rm -rf $HADOOP_DIR/hadoop-mapreduce-project/hadoop-mapreduce-client/hadoop-mapreduce-client-jobclient;cp -r hadoop-mapreduce-client-jobclient $HADOOP_DIR/hadoop-mapreduce-project/hadoop-mapreduce-client/;
|
songweijia/hdfsrs
|
copy.sh
|
Shell
|
apache-2.0
| 804 |
#!/bin/bash
set -e
# Warning: This is NOT a robust testing script.
# DO NOT OVERLY TRUST IT.
# unified Flask restful api applications need x-ersa-auth-token
# Match this with ERSA_AUTH_TOKEN in config-***.py formated as:
# ERSA_AUTH_TOKEN = "UUID STRING"
# Make sure all test configs are named as config-$package.py and created
for package in hcp hnas hpc swift xfs
do
echo Testing models of $package
config=config-$package.py
echo "Config file is $config"
export APP_SETTINGS=$config
python -m unittest unified.models.tests.test_$package
done
|
eResearchSA/reporting-unified
|
test_unified_models.sh
|
Shell
|
apache-2.0
| 567 |
#!/bin/bash
script_dir="$(dirname $0)"
. "${script_dir}/functions"
backup_dir="/etc/puppetlabs/code_backup"
backup_date=$(date +'%Y%m%d-%H%M%S')
environment=${1:-production}
PATH=$PATH:/usr/local/bin
echo_title "Installing prerequisite packages and gems"
puppet resource package git ensure=present
if [ $(facter osfamily) == 'Debian' ]; then
puppet resource package ruby ensure=present
else
puppet resource package rubygems ensure=present
fi
puppet resource package deep_merge ensure=present provider=gem
puppet resource package hiera-eyaml ensure=present provider=gem
puppet resource package r10k ensure=present provider=gem
mkdir -p /etc/puppetlabs/code/environments/
if [ -d /etc/puppetlabs/code/environments/$environment ]; then
ask_interactive "Directory /etc/puppetlabs/code/environments/$environment exists. We have to move it."
if [ "$?" = 0 ]; then
mkdir -p $backup_dir
mv /etc/puppetlabs/code/environments/$environment "${backup_dir}/${environment}-${backup_date}"
echo_subtitle "/etc/puppetlabs/code/environments/$environment moved to ${backup_dir}/${environment}-${backup_date}"
else
echo "Can't proceed. Remove /etc/puppetlabs/code/environments/$environment or pass as argument a different environment"
exit 1
fi
fi
echo title "Cloning git://github.com/example42/psick.git to /etc/puppetlabs/code/environments/$environment"
git clone git://github.com/example42/psick.git /etc/puppetlabs/code/environments/$environment
cd /etc/puppetlabs/code/environments/$environment
echo_title "Running r10k puppetfile install -v"
r10k puppetfile install -v
echo_title "Linking /etc/puppetlabs/puppet/hiera.yaml to /etc/puppetlabs/code/environments/$environment/hiera3.yaml"
ln -sf /etc/puppetlabs/code/environments/$environment/hiera3.yaml /etc/puppetlabs/puppet/hiera.yaml
|
snesbittsea/psick
|
bin/puppet_deploy_controlrepo.sh
|
Shell
|
apache-2.0
| 1,811 |
#!/bin/bash
if [ -z "$VCAP_APP_PORT" ];
then SERVER_PORT=80;
else SERVER_PORT="$VCAP_APP_PORT";
fi
echo port is $SERVER_PORT
python manage.py makemigrations --settings=cognitive.settings.bluemix
python manage.py migrate --settings=cognitive.settings.bluemix
echo "from django.contrib.auth.models import User; User.objects.create_superuser(username='xxxxxxxx',password='yyyyyyyy',email='[email protected]')" | python manage.py shell --settings=cognitive.settings.bluemix
echo [$0] Starting Django Server...
python manage.py runserver 0.0.0.0:$SERVER_PORT --noreload --settings=cognitive.settings.bluemix
|
chughts/watson-betaworks-python-sample
|
runinitial.sh
|
Shell
|
apache-2.0
| 603 |
#!/bin/bash -e
# Copyright 2016 C.S.I.R. Meraka Institute
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
. /etc/profile.d/modules.sh
module load ci
module add zlib
export LD_LIBRARY_PATH="/lib64:$LD_LIBRARY_PATH"
echo "About to make the modules"
cd $WORKSPACE/${NAME}-${VERSION}/build-${BUILD_NUMBER}
ls
echo $?
echo "Run Make Check - This is the Test"
make check
echo "Run make Install"
make install
mkdir -p modules
(
cat <<MODULE_FILE
#%Module1.0
## $NAME modulefile
##
proc ModulesHelp { } {
puts stderr "\tAdds $NAME $VERSION to your environment"
}
module-whatis "$NAME $VERSION."
setenv LIBPNG_VERSION $VERSION
setenv LIBPNG_DIR /data/ci-build/$::env(SITE)/$::env(OS)/$::env(ARCH)/$NAME/$VERSION
prepend-path PATH $::env(LIBPNG_DIR)/bin
prepend-path MANPATH $::env(LIBPNG_DIR)/man
prepend-path LD_LIBRARY_PATH $::env(LIBPNG_DIR)/lib
MODULE_FILE
) > modules/${VERSION}
mkdir -p ${LIBRARIES}/${NAME}
cp modules/${VERSION} ${LIBRARIES}/${NAME}/${VERSION}
# Testing module
module avail
module list
module add ${NAME}/${VERSION}
which libpng16-config
libpng16-config --version
|
SouthAfricaDigitalScience/libpng-deploy
|
check-build.sh
|
Shell
|
apache-2.0
| 1,642 |
scripts_dir="../scripts/"
echo "-------------------------------------------------------------------" >>log.txt
echo "---------New Script Run--------------------------------------------" >>log.txt
echo "-------------------------------------------------------------------" >>log.txt
if [ -f dirty_transaction ]; then
echo "Potentially incomplete transaction, read log.txt and fix the issue!"
exit 1
fi
psql demodb -f engine-db-scripts/create-shema-version-table.sql &>>log.txt
current_version=`psql demodb --quiet --no-align -f engine-db-scripts/get-schema-version.sql | sed -n 2p`
# the above return the result as second line, but when there are no rows in result set, then the second line has already the number of rows in result set i.e. 0 rows
echo $current_version | grep row && current_version=-1 && echo "No current version number... using -1" >> log.txt
echo "current_version=$current_version" >> log.txt
ls $scripts_dir | \
while read file_name; do
file_number=`echo $file_name | sed 's/\([0-9]*\).*/\1/'`
if [[ -z "${file_number// }" ]]; then echo "no more numbered scripts..." && exit 0
fi
if [ "$file_number" -gt "$current_version" ] ; then
if [ -f dirty_transaction ]; then
echo "Potentially incomplete transaction, read log.txt and fix the issue!"
exit 1
fi
echo "$file_number > $current_version executing $file_name"
touch dirty_transaction
INSERT_SQL="insert into schema_version values($file_number);"
echo "executing $file_name" >> log.txt
psql demodb -v "ON_ERROR_STOP=1" -f $scripts_dir/$file_name &>> log.txt && \
echo "execution succeeded - updating db schema number" >> log.txt && \
current_version=$file_number && \
echo $INSERT_SQL &>>log.txt && \
psql demodb -v "ON_ERROR_STOP=1" -c "$INSERT_SQL" &>>log.txt && \
psql demodb -f engine-db-scripts/delete-from-schema-version.sql &>>log.txt && \
echo "schema number succesfully updated in db" >> log.txt && \
rm dirty_transaction
else
echo "$file_number =< $current_version skipping $file_name"
fi
done
|
PauliJokinen/db-schema-updater
|
engine/schema-engine.sh
|
Shell
|
apache-2.0
| 2,107 |
#!/bin/bash
sudo apt-get install zsh
cat << 'EOF' > ~/.zshrc
# FUNCTIONS #
#############
function glob-exists () {
# glob-exists "<GLOB>"
# Test to see if a glob matches anything.
# Example: glob-exists "~/.ssh/*.pub"
[[ -n `zsh -G -c 'echo ${~1}'` ]];
}
function tty-of-pid () {
echo /dev/tty`ps -p "$1" -o tt | tail -n 1`
}
# PATHS #
##########
export PLATFORM=`uname -s`
if [ $PLATFORM = Darwin ]; then
dev=~/Development
desk=~/Desktop
USER_PATH=~/Development/bin
PYTHON_PATH=/Library/Frameworks/Python.framework/Versions/Current/bin
export PATH=$USER_PATH:$PYTHON_PATH:$PATH
elif [ $PLATFORM = Linux ]; then
if glob-exists "~/.ssh/*.pub" && which keychain >/dev/null 2>&1; then
eval `ls ~/.ssh/*.pub | sed 's/\.pub//' | xargs keychain --eval`
fi
fi
export EDITOR='subl -w'
export GIT_EDITOR='subl -w'
mkdir -p ~/.zsh/cache
# LANGUAGES/TIMEZONES #
########################
export LC_ALL="en_US.UTF-8"
export LANG="en_US.UTF-8"
export LC_CTYPE=C
export TZ='GMT'
# OPTIONS #
############
# Changing Directories #
#-----------------------#
setopt AUTO_CD # If a command isn't found, and names a directory, cd to it.
setopt AUTO_PUSHD # Make `cd` behave like `pushd`.
setopt CDABLE_VARS # `cd param` => `cd ~param` => `cd /path/to/dir`
setopt PUSHD_IGNORE_DUPS # Don't push multiple copies of the same dir onto the stack.
setopt PUSHD_TO_HOME # `pushd` with no args == `pushd $HOME`.
# Completion #
#-------------#
setopt AUTO_LIST # Automatically list choices on an ambiguous completion.
setopt AUTO_MENU # Use a menu after the second <tab> for an ambiguous completion.
setopt AUTO_NAME_DIRS # param=/path/to/dir => ~param.
setopt AUTO_PARAM_KEYS # Automatically complete characters that have to come after a parameter name.
setopt AUTO_PARAM_SLASH # Automatically add trailing slashes to parameters containing directory names.
unsetopt AUTO_REMOVE_SLASH # Don't remove slashes at the end of completed dirnames.
setopt GLOB_COMPLETE # Allow cycling through expansions using globs.
setopt HASH_LIST_ALL # The first time completion is attempted, hash the whole PATH.
setopt LIST_TYPES # Show the type of file in completions with a trailing character.
setopt REC_EXACT # During completion, recognize exact matches even if they are ambiguous.
# Expansion and Globbing #
#-------------------------#
setopt BAD_PATTERN # Raise errors for badly-formed filename generation patterns.
setopt EXTENDED_GLOB # More powerful globbing with `#`, `~` and `^`.
setopt GLOB # Enable globbing.
setopt CSH_NULL_GLOB # Only raise an error if all arguments to a command are null globs.
setopt NUMERIC_GLOB_SORT # Sort numeric filenames numerically when using globs.
setopt RC_EXPAND_PARAM # $xx = (a b c); foo${xx}bar => (fooabar foobbar foocbar)
# History #
#----------#
setopt BANG_HIST # Enable textual history substitution, using !-syntax.
setopt EXTENDED_HISTORY # Save beginning and ending timestamps to the history file.
setopt HIST_ALLOW_CLOBBER # Allow clobbering (with pipes) in the command history.
setopt HIST_IGNORE_SPACE # Don't remember space-prefixed commands.
setopt HIST_REDUCE_BLANKS # Remove superfluous blanks from commands being added to the history.
setopt APPEND_HISTORY # Parallel zsh sessions will append their history to the history file.
# Input/Output #
#---------------#
unsetopt CORRECT # Attempt to correct the spelling of commands.
unsetopt CORRECT_ALL # Attempt to correct all arguments in a line.
setopt INTERACTIVE_COMMENTS # Allow comments in the interactive shell.
unsetopt HASH_CMDS # Use command hashing the first time a command is called.
setopt MAIL_WARNING # Inform me if I have system mail.
setopt RC_QUOTES # 'Zack''s Shell' => "Zack's Shell"
# Job Control #
#--------------#
setopt AUTO_CONTINUE # Send stopped jobs a CONTINUE signal after they're disowned.
setopt AUTO_RESUME # Single-word simple commands will resume a currently-running job.
unsetopt BG_NICE # Don't set background tasks to a lower priority.
setopt LONG_LIST_JOBS # List jobs in the long format by default.
setopt NOTIFY # Report the status of background jobs immediately, rather than waiting until the next prompt.
# Prompting #
#------------#
setopt PROMPT_SUBST # Perform substitution/expansion in prompts.
# Scripts and Functions #
#------------------------#
setopt FUNCTION_ARGZERO # Set $0 to the name of a function/script when running.
setopt MULTIOS # Perform implicit `tee`s or `cat`s for multiple redirections.
# ZSH MODULES #
################
zmodload zsh/stat
zmodload -a mapfile
zmodload zsh/terminfo
autoload colors; colors # ANSI color codes
zmodload zsh/complist
autoload -U compinit; compinit # Completion
# HISTORY #
############
# Log 10K commands
export HISTSIZE=10000
export SAVEHIST=10000
export HISTFILE=$HOME/.zsh/history
# VIEWING/EDITING #
####################
export PAGER='less'
alias more='less'
export EDITOR='vim'
export MUTT_EDITOR='vim'
export GIT_EDITOR='vim'
# PROMPT #
###########
export VIRTUAL_ENV_DISABLE_PROMPT=definitely
_virtualenv_prompt () {
if [[ -n $VIRTUAL_ENV ]]; then
echo " workon%F{cyan}" `basename "$VIRTUAL_ENV"`"%f"
fi
}
_git_prompt () {
test -z "$(pwd | egrep '/\.git(/|$)')" || return
local _git_branch="`git branch 2>/dev/null | egrep '^\*' | sed 's/^\* //'`"
test -z "$_git_branch" && return
local _git_status=`git status --porcelain | sort | awk '
BEGIN { modified = 0; staged = 0; new = 0; }
/^ / { modified += 1 }
/^[^\? ]/ { staged += 1 }
/^\?/ { new += 1 }
END {
if (staged) { print "."; exit }
if (modified) { print "."; exit }
if (new) { print "."; exit }
}'`
if [[ -n $_git_status ]]; then
_git_status=":%F{yellow}$_git_status%f]"
else
_git_status="] "
fi
echo -n "[%F{gray}±%f:%F{blue}$_git_branch%f$_git_status"
}
PROMPT='
%(?..[%F{red}%?%f] )%F{magenta}%n%f at %F{yellow}%m%f in %F{green}%~%f$(_virtualenv_prompt)
%F{magenta}>>%f%F{yellow}>%f '
if which git >/dev/null 2>&1; then
RPROMPT='$(_git_prompt)'
fi
# KEY BINDINGS #
#################
# Ctrl-A, Ctrl-E
bindkey '^a' beginning-of-line
bindkey '^e' end-of-line
# Arrow Keys
bindkey "$terminfo[kcuu1]" up-line-or-history
bindkey "$terminfo[kcud1]" down-line-or-history
bindkey '^[f' forward-word
bindkey '^[b' backward-word
# Misc
## bindkey ' ' magic-space # Do history expansion on space
bindkey '^r' history-incremental-search-backward
bindkey "^[[3~" delete-char
bindkey "^?" backward-delete-char
# PYTHON #
###########
if [ -f ~/.pythonrc ]; then
export PYTHONSTARTUP=~/.pythonrc
fi
# virtualenv
if which virtualenvwrapper.sh >/dev/null 2>&1; then
export WORKON_HOME=$HOME/.virtualenvs
. "`which virtualenvwrapper.sh`"
workon default
fi
function cd.py () {
cd "$(python -c "import os.path as _, ${1}; \
print _.dirname(_.realpath(${1}.__file__[:-1]))")"
}
# pip
if which pip >/dev/null 2>&1; then
if [ ! -f ~/.zsh/cache/pip_completion ]; then
pip completion --zsh | egrep -v '^\s*(#|$)' > ~/.zsh/cache/pip_completion 2>/dev/null
fi
. ~/.zsh/cache/pip_completion
export PIP_RESPECT_VIRTUALENV=true
fi
# Functions #
#------------#
python_lib () {
# python_lib
# Print the full path to the current Python site-packages directory.
echo `python -c 'import distutils; print distutils.sysconfig_get_python_lib()'`
}
pylink () {
# pylink <package/module>
# Symlink a Python package/module into the site-packages directory.
ln -s $(abspath `pwd`/"$1") `python_lib`/`basename "$1"`
}
pyunlink () {
# pyunlink <package/module>
# Remove the link to a Python package/module from the site-packages directory.
unlink `python_lib`/`basename "$1"`
}
# RUBY #
#########
[[ -s $HOME/.rvm/scripts/rvm ]] && source $HOME/.rvm/scripts/rvm
export RUBYOPT="-rubygems"
# FUNCTIONS #
##############
abspath () {
# abspath <directory>
# Print the absolute path to a given file (using Python's `os.path.abspath()`).
python -c 'import os, sys; print os.path.abspath(sys.argv[1])' "$@"
}
# ALIASES #
############
if [ $PLATFORM = Linux ]; then
alias ls='ls -Flh --color=auto'
else
alias ls='ls -FGlh'
fi
alias service='sudo service'
alias tail='sudo tail'
alias apt-get='sudo apt-get'
alias dir='ll'
alias l='ll'
alias ll='ls -lh'
alias la='ls -A'
alias curl='curl -s'
alias tree='tree -C --dirsfirst'
alias rmpyc='find . -name "*.pyc" -delete'
alias mailenc='gpg2 --armor --sign --encrypt'
alias moar='curl -s "http://meme.boxofjunk.ws/moar.txt?lines=1"'
alias wtcommit='curl -s "http://whatthecommit.com/index.txt"'
alias top='top -ocpu'
alias dj='django-admin.py'
if [ -f ~/.wcookies ]; then
alias download="wget -c --load-cookies ~/.wcookies"
fi
# COMPLETION STYLES #
######################
zstyle ':completion::complete:*' use-cache on
zstyle ':completion::complete:*' cache-path ~/.zsh/cache/$HOST
zstyle ':completion:*' list-colors ${(s.:.)LS_COLORS}
zstyle ':completion:*' list-prompt '%SAt %p: Hit TAB for more, or the character to insert%s'
zstyle ':completion:*' menu select=1 _complete _ignored _approximate
zstyle -e ':completion:*:approximate:*' max-errors \
'reply=( $(( ($#PREFIX+$#SUFFIX)/2 )) numeric )'
zstyle ':completion:*' select-prompt '%SScrolling active: current selection at %p%s'
zstyle ':completion:*:processes' command 'ps -axw'
zstyle ':completion:*:processes-names' command 'ps -awxho command'
# Completion Styles
zstyle ':completion:*:*:kill:*:processes' list-colors '=(#b) #([0-9]#)*=0=01;31'
# list of completers to use
zstyle ':completion:*::::' completer _expand _complete _ignored _approximate
# allow one error for every three characters typed in approximate completer
zstyle -e ':completion:*:approximate:*' max-errors \
'reply=( $(( ($#PREFIX+$#SUFFIX)/2 )) numeric )'
# insert all expansions for expand completer
zstyle ':completion:*:expand:*' tag-order all-expansions
# NEW completion:
# 1. All /etc/hosts hostnames are in autocomplete
# 2. If you have a comment in /etc/hosts like #%foobar.domain,
# then foobar.domain will show up in autocomplete!
zstyle ':completion:*' hosts $(awk '/^[^#]/ {print $2 $3" "$4" "$5}' /etc/hosts | grep -v ip6- && grep "^#%" /etc/hosts | awk -F% '{print $2}')
# formatting and messages
zstyle ':completion:*' verbose yes
zstyle ':completion:*:descriptions' format '%B%d%b'
zstyle ':completion:*:messages' format '%d'
zstyle ':completion:*:warnings' format 'No matches for: %d'
zstyle ':completion:*:corrections' format '%B%d (errors: %e)%b'
zstyle ':completion:*' group-name ''
# match uppercase from lowercase
zstyle ':completion:*' matcher-list 'm:{a-z}={A-Z}'
# offer indexes before parameters in subscripts
zstyle ':completion:*:*:-subscript-:*' tag-order indexes parameters
# command for process lists, the local web server details and host completion
zstyle ':completion:*:processes' command 'ps -o pid,s,nice,stime,args'
# zstyle ':completion:*:urls' local 'www' '/var/www/htdocs' 'public_html'
zstyle '*' hosts $hosts
# Filename suffixes to ignore during completion (except after rm command)
zstyle ':completion:*:*:(^rm):*:*files' ignored-patterns '*?.o' '*?.c~' \
'*?.old' '*?.pro'
# the same for old style completion
#fignore=(.o .c~ .old .pro)
# ignore completion functions (until the _ignored completer)
zstyle ':completion:*:functions' ignored-patterns '_*'
zstyle ':completion:*:scp:*' tag-order \
files users 'hosts:-host hosts:-domain:domain hosts:-ipaddr"IP\ Address *'
zstyle ':completion:*:scp:*' group-order \
files all-files users hosts-domain hosts-host hosts-ipaddr
zstyle ':completion:*:ssh:*' tag-order \
users 'hosts:-host hosts:-domain:domain hosts:-ipaddr"IP\ Address *'
zstyle ':completion:*:ssh:*' group-order \
hosts-domain hosts-host users hosts-ipaddr
zstyle '*' single-ignored show
# TIMEZONE #
############
export TZ='UTC'
# FINALLY #
############
if [ -f ~/.zsh_profile ]; then
. ~/.zsh_profile
fi
cd ~
EOF
USERNAME="$(whoami)"
sudo ln $USERNAME/.zshrc /root/.zshrc
|
tylermenezes/Debian-Settings
|
install_zsh.sh
|
Shell
|
artistic-2.0
| 12,685 |
#!/usr/bin/env bash
shopt -s extglob # allow for complex regex-like globs
files () {
[ -f "$1" ] && echo "$@"
}
NODE_VERSION="$(node --version)"
if [[ "${NODE_VERSION:0:6}" != "v0.10." && "${NODE_VERSION:0:6}" != "v0.12." ]]; then
echo "running: test/start/env/test.js"
cd test/start/env
OPBEAT_APP_ID=from-env node -r ../../../start test.js || exit $?;
cd ../../..
echo "running: test/start/file/test.js"
cd test/start/file
node -r ../../../start test.js || exit $?;
cd ../../..
fi
for file in $(files test/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/sourcemaps/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/modules/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/modules/http/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/modules/pg/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/modules/mysql/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/modules/bluebird/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
for file in $(files test/instrumentation/modules/koa-router/!(_*).js); do
echo "running: node $file"
node "$file" || exit $?;
done
|
opbeat/opbeat-node
|
test/test.sh
|
Shell
|
bsd-2-clause
| 1,620 |
#!/bin/sh
echo "installing dependencies..."
sudo apt install -y pkg-config xorg-dev libgl1-mesa-dev
echo "downloading and installing http://github.com/skaslev/gl3w"
git clone http://github.com/skaslev/gl3w.git
mkdir temp && gl3w/gl3w_gen.py temp
mkdir core/impl/render/gl/GL
cp temp/include/GL/* core/impl/render/gl/GL/
cp temp/src/* core/impl/render/gl/GL/
rm -r -f temp gl3w
echo "downloading and installing http://github.com/glfw/glfw"
git clone http://github.com/glfw/glfw.git
cd glfw && cmake CMakeLists.txt && make && sudo make install && cd ../ && rm -r -f glfw
echo "finished."
|
clearlycloudy/enhance
|
install_dependencies.sh
|
Shell
|
bsd-2-clause
| 591 |
npm run build
rm static/css/*.css
rm static/js/*.js
rm static/js/*.map
mkdir -p static/css
mkdir -p static/js
cp templates/hs_discover/css/app*.css static/css/app.css
cp templates/hs_discover/css/chunk-vendors*.css static/css/chunk-vendors.css
cp templates/hs_discover/css/*.css static/css
cp templates/hs_discover/js/app*.js static/js/app.js
cp templates/hs_discover/js/*.js static/js
cp templates/hs_discover/map.js static/js/map.js
cp templates/hs_discover/js/*.map static/js/
cp templates/hs_discover/js/chunk-vendors*.js static/js/chunk-vendors.js
docker exec -it hydroshare python manage.py collectstatic --no-input
|
hydroshare/hydroshare
|
hs_discover/deploy.sh
|
Shell
|
bsd-3-clause
| 622 |
#!/bin/bash
#
# Copyright (c) 2017, SingularityWare, LLC. All rights reserved.
#
# Copyright (c) 2015-2017, Gregory M. Kurtzer. All rights reserved.
#
# Copyright (c) 2016-2017, The Regents of the University of California,
# through Lawrence Berkeley National Laboratory (subject to receipt of any
# required approvals from the U.S. Dept. of Energy). All rights reserved.
#
# This software is licensed under a customized 3-clause BSD license. Please
# consult LICENSE file distributed with the sources of this project regarding
# your rights to use or distribute this software.
#
# NOTICE. This Software was developed under funding from the U.S. Department of
# Energy and the U.S. Government consequently retains certain rights. As such,
# the U.S. Government has been granted for itself and others acting on its
# behalf a paid-up, nonexclusive, irrevocable, worldwide license in the Software
# to reproduce, distribute copies to the public, prepare derivative works, and
# perform publicly and display publicly, and to permit other to do so.
#
#
## Basic sanity
if [ -z "$SINGULARITY_libexecdir" ]; then
echo "Could not identify the Singularity libexecdir."
exit 1
fi
## Load functions
if [ -f "$SINGULARITY_libexecdir/singularity/functions" ]; then
. "$SINGULARITY_libexecdir/singularity/functions"
else
echo "Error loading functions: $SINGULARITY_libexecdir/singularity/functions"
exit 1
fi
if [ -z "${SINGULARITY_ROOTFS:-}" ]; then
message ERROR "Singularity root file system not defined\n"
exit 1
fi
install -d -m 0755 "$SINGULARITY_ROOTFS"
install -d -m 0755 "$SINGULARITY_ROOTFS/.singularity.d"
install -d -m 0755 "$SINGULARITY_ROOTFS/.singularity.d/env"
if [ -f "$SINGULARITY_BUILDDEF" ]; then
ARGS=`singularity_section_args "pre" "$SINGULARITY_BUILDDEF"`
singularity_section_get "pre" "$SINGULARITY_BUILDDEF" | /bin/sh -e -x $ARGS || ABORT 255
fi
exit 0
|
Trophime/singularity
|
libexec/bootstrap-scripts/pre.sh
|
Shell
|
bsd-3-clause
| 1,920 |
#!/usr/bin/env bash
##
###
### Based on the original script by the friendly guys at Boundary
###
### Copyright 2011-2013, Boundary
### Copyright 2013, Server Density
###
### Licensed under the Apache License, Version 2.0 (the "License");
### you may not use this file except in compliance with the License.
### You may obtain a copy of the License at
###
### http://www.apache.org/licenses/LICENSE-2.0
###
### Unless required by applicable law or agreed to in writing, software
### distributed under the License is distributed on an "AS IS" BASIS,
### WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
### See the License for the specific language governing permissions and
### limitations under the License.
###
PLATFORMS=("Ubuntu" "Debian" "CentOS" "Amazon" "RHEL" "CloudLinux" "Fedora")
# Put additional version numbers here.
# These variables take the form ${platform}_VERSIONS, where $platform matches
# the tags in $PLATFORMS
Ubuntu_VERSIONS=("10.04" "10.10" "11.04" "11.10" "12.04" "12.10" "13.04" "13.10" "14.04" "14.10")
Debian_VERSIONS=("5" "6")
CentOS_VERSIONS=("5" "6")
Amazon_VERSIONS=("2012.09" "2013.03")
RHEL_VERSIONS=("5" "6")
CloudLinux_VERSIONS=("5" "6")
Fedora_VERSIONS=("21")
# For version number updates you hopefully don't need to modify below this line
# -----------------------------------------------------------------------------
SUPPORTED_ARCH=0
SUPPORTED_PLATFORM=0
APT_CMD="apt-get -q -y --force-yes"
YUM_CMD="yum -d0 -e0 -y"
trap "exit" INT TERM EXIT
function print_supported_platforms() {
echo "Supported platforms are:"
for d in ${PLATFORMS[*]}
do
echo -n " * $d:"
foo="\${${d}_VERSIONS[*]}"
versions=`eval echo $foo`
for v in $versions
do
echo -n " $v"
done
echo ""
done
}
function check_distro_version() {
PLATFORM=$1
DISTRO=$2
VERSION=$3
TEMP="\${${DISTRO}_versions[*]}"
VERSIONS=`eval echo $TEMP`
if [ $DISTRO = "Ubuntu" ]; then
MAJOR_VERSION=`echo $VERSION | awk -F. '{print $1}'`
MINOR_VERSION=`echo $VERSION | awk -F. '{print $2}'`
PATCH_VERSION=`echo $VERSION | awk -F. '{print $3}'`
TEMP="\${${DISTRO}_VERSIONS[*]}"
VERSIONS=`eval echo $TEMP`
for v in $VERSIONS ; do
if [ "$MAJOR_VERSION.$MINOR_VERSION" = "$v" ]; then
return 0
fi
done
elif [ $DISTRO = "CentOS" ] || [ $DISTRO = "RHEL" ] || [ $DISTRO = "CloudLinux" ]; then
MAJOR_VERSION=`echo $VERSION | awk -F. '{print $1}'`
MINOR_VERSION=`echo $VERSION | awk -F. '{print $2}'`
TEMP="\${${DISTRO}_VERSIONS[*]}"
VERSIONS=`eval echo $TEMP`
for v in $VERSIONS ; do
if [ "$MAJOR_VERSION" = "$v" ]; then
return 0
fi
done
elif [ $DISTRO = "Amazon" ]; then
VERSION=`echo $PLATFORM | awk '{print $5}'`
# Some of these include minor numbers. Trim.
VERSION=${VERSION:0:7}
TEMP="\${${DISTRO}_VERSIONS[*]}"
VERSIONS=`eval echo $TEMP`
for v in $VERSIONS ; do
if [ "$VERSION" = "$v" ]; then
return 0
fi
done
elif [ $DISTRO = "Debian" ]; then
MAJOR_VERSION=`echo $VERSION | awk -F. '{print $1}'`
MINOR_VERSION=`echo $VERSION | awk -F. '{print $2}'`
TEMP="\${${DISTRO}_VERSIONS[*]}"
VERSIONS=`eval echo $TEMP`
for v in $VERSIONS ; do
if [ "$MAJOR_VERSION" = "$v" ]; then
return 0
fi
done
elif [ $DISTRO = "Fedora" ]; then
VERSION=`echo $PLATFORM | awk '{print $3}'`
# Some of these include minor numbers. Trim.
TEMP="\${${DISTRO}_VERSIONS[*]}"
VERSIONS=`eval echo $TEMP`
for v in $VERSIONS ; do
if [ "$VERSION" = "$v" ]; then
return 0
fi
done
fi
echo "Detected $DISTRO but with an unsupported version ($VERSION)"
return 1
}
function print_help() {
echo " $0 -a https://example.serverdensity.io -k agentKey"
echo " -a: Required. Account URL in form https://example.serverdensity.io"
echo " -k: Agent key. Not required if API token provided. "
echo " -t: API token. Not required if agent key provided. "
echo " -g: Group. Optional. Group to add the new device into."
echo " -T: Tag. Optional. Tag this device - multiple tags not supported."
echo " -p: Provider. Optional. Hosting provider."
echo " -i: Provider Id. Optional. Requires Provider. Cloud device Id."
exit 0
}
function do_install() {
if [ "$DISTRO" = "Ubuntu" ] || [ "$DISTRO" = "Debian" ]; then
sudo $APT_CMD update > /dev/null
APT_STRING="deb http://www.serverdensity.com/downloads/linux/deb all main"
echo "Adding repository"
sudo sh -c "echo \"deb http://www.serverdensity.com/downloads/linux/deb all main\" > /etc/apt/sources.list.d/sd-agent.list"
$CURL -Ls https://www.serverdensity.com/downloads/boxedice-public.key | sudo apt-key add -
if [ $? -gt 0 ]; then
echo "Error downloading key"
exit 1
fi
echo "Installing agent"
sudo $APT_CMD update > /dev/null
sudo $APT_CMD install sd-agent
return $?
elif [ "$DISTRO" = "CentOS" ] || [ $DISTRO = "Amazon" ] || [ $DISTRO = "RHEL" ] || [ $DISTRO = "CloudLinux" ] || [ $DISTRO = "Fedora" ]; then
echo "Adding repository"
sudo sh -c "cat - > /etc/yum.repos.d/serverdensity.repo <<EOF
[serverdensity]
name=Server Density
baseurl=http://www.serverdensity.com/downloads/linux/redhat/
enabled=1
gpgcheck=1
gpgkey=file:///etc/pki/rpm-gpg/RPM-GPG-KEY-serverdensity
EOF"
$CURL -Ls https://www.serverdensity.com/downloads/boxedice-public.key | sudo tee /etc/pki/rpm-gpg/RPM-GPG-KEY-serverdensity > /dev/null
if [ $? -gt 0 ]; then
echo "Error downloading key"
exit 1
fi
echo "Installing agent"
sudo $YUM_CMD install sd-agent
return $?
fi
}
function configure_agent() {
echo "Configuring agent"
sudo sh -c "cat - > /etc/sd-agent/config.cfg <<EOF
#
# Server Density Agent Config
# Docs: http://www.serverdensity.com/docs/agent/configvariables/
#
[Main]
sd_url: $ACCOUNT
agent_key: $AGENTKEY
#
# Plugins
#
# Leave blank to ignore. See http://www.serverdensity.com/docs/agent/writingplugins/
#
plugin_directory:
#
# Optional status monitoring
#
# See http://www.serverdensity.com/docs/agent/config/
# Ignore these if you do not wish to monitor them
#
# Apache
# See http://www.serverdensity.com/docs/agent/apache/
apache_status_url: http://www.example.com/server-status/?auto
apache_status_user:
apache_status_pass:
# MongoDB
# See http://www.serverdensity.com/docs/agent/mongodb/
mongodb_server:
mongodb_dbstats: no
mongodb_replset: no
# MySQL
# See http://www.serverdensity.com/docs/agent/mysql/
mysql_server:
mysql_user:
mysql_pass:
# nginx
# See http://www.serverdensity.com/docs/agent/nginx/
nginx_status_url: http://www.example.com/nginx_status
# RabbitMQ
# See http://www.serverdensity.com/docs/agent/rabbitmq/
# for rabbit > 2.x use this url:
# rabbitmq_status_url: http://www.example.com:55672/api/overview
# for earlier, use this:
rabbitmq_status_url: http://www.example.com:55672/json
rabbitmq_user: guest
rabbitmq_pass: guest
# Temporary file location
# See http://www.serverdensity.com/docs/agent/config/
# tmp_directory: /var/log/custom_location
# Pid file location
# See http://www.serverdensity.com/docs/agent/config/
# pidfile_directory: /var/custom_location
# Set log level
# See http://www.serverdensity.com/docs/agent/config/
# logging_level: debug
EOF"
sudo /etc/init.d/sd-agent restart
}
function pre_install_sanity() {
SUDO=`which sudo`
if [ $? -ne 0 ]; then
echo "This script requires that sudo be installed and configured for your user."
echo "Please install sudo. For assistance, [email protected]"
exit 1
fi
which curl > /dev/null
if [ $? -gt 0 ]; then
echo "The 'curl' command is either not installed or not on the PATH ..."
echo "Installing curl ..."
if [ $DISTRO = "Ubuntu" ] || [ $DISTRO = "Debian" ]; then
sudo $APT_CMD update > /dev/null
sudo $APT_CMD install curl
elif [ $DISTRO = "CentOS" ] || [ $DISTRO = "Amazon" ] || [ $DISTRO = "RHEL" ] || [ $DISTRO = "CloudLinux" ] || [ $DISTRO = "Fedora" ]; then
sudo $YUM_CMD install curl
fi
fi
CURL="`which curl`"
}
function get_existing_device() {
RESULT=`curl -v "https://api.serverdensity.io/inventory/resources/?token=$1&filter=$2"`
exit_status=$?
# an exit status of 1 indicates an unsupported protocol. (e.g.,
# https hasn't been baked in.)
if [ "$exit_status" -eq "1" ]; then
echo "Your local version of curl has not been built with HTTPS support: `which curl`"
exit 1
# if the exit code is 7, that means curl couldnt connect so we can bail
elif [ "$exit_status" -eq "7" ]; then
echo "Could not connect to create server"
exit 1
# it appears that an exit code of 28 is also a can't connect error
elif [ "$exit_status" -eq "28" ]; then
echo "Could not connect to create server"
exit 1
elif [ "$exit_status" -ne "0" ]; then
echo "Error connecting to api.serverdensity.io; status $exit_status."
exit 1
fi
AGENTKEY=`echo $RESULT | sed 's/\\\\\//\//g' | sed 's/[{}]//g' | awk -v k="text" '{n=split($0,a,","); for (i=1; i<=n; i++) print a[i]}' | sed 's/\"\:\"/\|/g' | sed 's/[\,]/ /g' | sed 's/\"//g' | grep -w agentKey | cut -d"|" -f2| sed -e 's/^ *//g' -e 's/ *$//g'`
if [ "$AGENTKEY" = "401" ]; then
echo "Authentication error: $OUTPUT"
echo "Verify that you have passed in the correct account URL and API token"
exit 1
elif [ "$AGENTKEY" = "403" ]; then
echo "Forbidden error: $OUTPUT"
echo "Verify that you have passed in the correct account URL and API token"
exit 1
fi
}
# Grab some system information
if [ -f /etc/redhat-release ] ; then
PLATFORM=`cat /etc/redhat-release`
DISTRO=`echo $PLATFORM | awk '{print $1}'`
if [ "$DISTRO" = "Red" ]; then
DISTRO="RHEL"
VERSION=`echo $PLATFORM | awk '{print $7}'`
elif [ "$DISTRO" = "CentOS" ]; then
VERSION=`echo $PLATFORM | awk '{print $3}'`
elif [ "$DISTRO" = "CloudLinux" ]; then
VERSION=`echo $PLATFORM | awk '{print $4}'`
elif [ "$DISTRO" = "Fedora" ]; then
VERSION=`echo $PLATFORM | awk '{print $3}'`
else
DISTRO="unknown"
PLATFORM="unknown"
VERSION="unknown"
fi
MACHINE=`uname -m`
elif [ -f /etc/system-release ]; then
PLATFORM=`cat /etc/system-release | head -n 1`
DISTRO=`echo $PLATFORM | awk '{print $1}'`
VERSION=`echo $PLATFORM | awk '{print $5}'`
MACHINE=`uname -m`
elif [ -f /etc/lsb-release ] ; then
#Ubuntu version lsb-release - https://help.ubuntu.com/community/CheckingYourUbuntuVersion
. /etc/lsb-release
PLATFORM=$DISTRIB_DESCRIPTION
DISTRO=$DISTRIB_ID
VERSION=$DISTRIB_RELEASE
MACHINE=`uname -m`
elif [ -f /etc/debian_version ] ; then
#Debian Version /etc/debian_version - Source: http://www.debian.org/doc/manuals/debian-faq/ch-software.en.html#s-isitdebian
DISTRO="Debian"
VERSION=`cat /etc/debian_version`
INFO="$DISTRO $VERSION"
PLATFORM=$INFO
MACHINE=`uname -m`
else
PLATFORM=`uname -sv | grep 'SunOS joyent'` > /dev/null
if [ "$?" = "0" ]; then
PLATFORM="SmartOS"
DISTRO="SmartOS"
VERSION=`cat /etc/product | grep 'Image' | awk '{ print $3}' | awk -F. '{print $1}'`
MACHINE="i686"
JOYENT=`cat /etc/product | grep 'Name' | awk '{ print $2}'`
elif [ "$?" != "0" ]; then
PLATFORM="unknown"
DISTRO="unknown"
MACHINE=`uname -m`
fi
fi
IGNORE_RELEASE=0
while getopts ":a:k:g:t:T:p:i:" opt; do
case $opt in
a)
ACCOUNT="$OPTARG" >&2
;;
k)
AGENTKEY="$OPTARG" >&2
;;
g)
GROUPNAME="$OPTARG" >&2
;;
t)
API_KEY="$OPTARG" >&2
;;
T)
TAGNAME="$OPTARG" >&2
;;
p)
PROVIDER="$OPTARG" >&2
;;
i)
PROVIDERID="$OPTARG" >&2
;;
\?)
exit
;;
:)
echo "Option -$OPTARG requires an argument." >&2
#exit 1
;;
esac
done
if [ -z $ACCOUNT ]; then
print_help
fi
if [ -z $AGENTKEY ]; then
if [ "${HOSTNAME}" = "" ]; then
echo "Host does not appear to have a hostname set!"
exit 1
fi
if [ "${PROVIDERID}" != "" ]; then
if [ -z "${PROVIDER}" ]; then
echo "We need a provider argument if you pass a provider id!"
exit 1
fi
fi
echo ""
echo "Using API key $API_KEY to automatically create device with hostname ${HOSTNAME}"
echo ""
TAG_ARG=""
GROUP_ARG=""
CLOUD_ARG=""
if [ "${TAGNAME}" != "" ]; then
TAGS=`curl --silent -X GET https://api.serverdensity.io/inventory/tags?token=${API_KEY}`
# very messy way to get the tag ID without using any json tools
TAGID=`echo $TAGS | sed -e $'s/},{/\\\n/g'| grep -i "\"$TAGNAME"\" | sed 's/.*"_id":"\([a-z0-9]*\)".*/\1/g'`
if [ ! -z $TAGID ]; then
echo "Found $TAGNAME, using tag ID $TAGID"
else
MD5=`which md5`
if [ -z $MD5 ]; then
MD5=`which md5sum`
fi
HEX="#`echo -n $TAGNAME | $MD5 | cut -c1-6`"
echo "Creating tag $TAGNAME with random hex code $HEX"
TAGS=`curl --silent -X POST https://api.serverdensity.io/inventory/tags?token=${API_KEY} --data "name=$TAGNAME&color=$HEX"`
TAGID=`echo $TAGS | grep -i $TAGNAME | sed 's/.*"_id":"\([a-z0-9]*\)".*/\1/g'`
echo "Tag cretated, using tag ID $TAGID"
fi
TAG_ARG="&tags=[\"${TAGID}\"]"
fi
if [ "${GROUPNAME}" != "" ]; then
GROUP_ARG="&group=${GROUPNAME}"
fi
if [ "${PROVIDERID}" != "" ]; then
CLOUD_ARG="&provider=${PROVIDER}&providerId=${PROVIDERID}"
FILTER="\{\"provider\":\"${PROVIDER}\",\"providerId\":\"${PROVIDERID}\",\"type\":\"device\"\}"
get_existing_device ${API_KEY} ${FILTER}
fi
if [ "${AGENTKEY}" = "" ]; then
RESULT=`curl -v https://api.serverdensity.io/inventory/devices/?token=${API_KEY} --data "name=${HOSTNAME}${GROUP_ARG}${TAG_ARG}${CLOUD_ARG}"`
exit_status=$?
# an exit status of 1 indicates an unsupported protocol. (e.g.,
# https hasn't been baked in.)
if [ "$exit_status" -eq "1" ]; then
echo "Your local version of curl has not been built with HTTPS support: `which curl`"
exit 1
# if the exit code is 7, that means curl couldnt connect so we can bail
elif [ "$exit_status" -eq "7" ]; then
echo "Could not connect to create server"
exit 1
# it appears that an exit code of 28 is also a can't connect error
elif [ "$exit_status" -eq "28" ]; then
echo "Could not connect to create server"
exit 1
elif [ "$exit_status" -ne "0" ]; then
echo "Error connecting to api.serverdensity.io; status $exit_status."
exit 1
fi
AGENTKEY=`echo $RESULT | sed 's/\\\\\//\//g' | sed 's/[{}]//g' | awk -v k="text" '{n=split($0,a,","); for (i=1; i<=n; i++) print a[i]}' | sed 's/\"\:\"/\|/g' | sed 's/[\,]/ /g' | sed 's/\"//g' | grep -w agentKey | cut -d"|" -f2| sed -e 's/^ *//g' -e 's/ *$//g'`
if [ "$AGENTKEY" = "" ]; then
echo "Unknown error communicating with api.serverdensity.io: $OUTPUT"
exit 1
elif [ "$AGENTKEY" = "401" ]; then
echo "Authentication error: $OUTPUT"
echo "Verify that you have passed in the correct account URL and API token"
exit 1
elif [ "$AGENTKEY" = "403" ]; then
echo "Forbidden error: $OUTPUT"
echo "Verify that you have passed in the correct account URL and API token"
exit 1
fi
fi
fi
echo ""
echo "Server Density Agent Installer"
echo ""
echo "Account: $ACCOUNT"
echo "Agent Key: $AGENTKEY"
echo "OS: $DISTRO $VERSION..."
echo ""
if [ $MACHINE = "i686" ]; then
ARCH="32"
SUPPORTED_ARCH=1
fi
if [ $MACHINE = "x86_64" ] || [ $MACHINE = "amd64" ]; then
ARCH="64"
SUPPORTED_ARCH=1
fi
if [ $SUPPORTED_ARCH -eq 0 ]; then
echo "Unsupported architecture ($MACHINE) ..."
echo "This is an unsupported platform for the sd-agent."
echo "Please contact [email protected] to request support for this architecture."
exit 1
fi
# Check the distribution
for d in ${PLATFORMS[*]} ; do
if [ $DISTRO = $d ]; then
SUPPORTED_PLATFORM=1
break
fi
done
if [ $SUPPORTED_PLATFORM -eq 0 ]; then
echo "Your platform is not supported by this script, but you may be able to do a manual install. Select Manual Install from the dropdown in the web UI."
echo ""
print_supported_platforms
exit 0
fi
if [ $IGNORE_RELEASE -ne 1 ]; then
# Check the version number
check_distro_version "$PLATFORM" $DISTRO $VERSION
if [ $? -ne 0 ]; then
IGNORE_RELEASE=1
echo "Detected $PLATFORM $DISTRO $VERSION"
fi
fi
# The version number hasn't been found; let's just try and masquerade
# (and tell users what we're doing)
if [ $IGNORE_RELEASE ] ; then
TEMP="\${${DISTRO}_VERSIONS[*]}"
VERSIONS=`eval echo $TEMP`
# Assume ordered list; grab latest version
VERSION=`echo $VERSIONS | awk '{print $NF}'`
MAJOR_VERSION=`echo $VERSION | awk -F. '{print $1}'`
MINOR_VERSION=`echo $VERSION | awk -F. '{print $2}'`
echo ""
echo "Continuing; for reference, script is masquerading as: $DISTRO $VERSION"
echo ""
fi
# At this point, we think we have a supported OS.
pre_install_sanity $d $v
do_install
configure_agent
if [ $? -ne 0 ]; then
echo "I added the correct repositories, but the agent installation failed."
echo "Please contact [email protected] about this problem."
exit 1
fi
echo ""
echo "The agent has been installed successfully!"
echo "Head back to $ACCOUNT to see your stats and set up some alerts."
|
canerdogan/sd-agent
|
install.sh
|
Shell
|
bsd-3-clause
| 18,505 |
#! /bin/sh
do_setup() {
true
}
do_test() {
ubongo-solve-3d board03 A G I M
}
do_teardown() {
true
}
. ./do-test.sh
|
m-kasahr/ubongo-utils
|
test/3d/board03-solve-01.sh
|
Shell
|
bsd-3-clause
| 131 |
#!/bin/bash
set -ex
zip=$1
if [ ! -f "$zip" ]; then
echo "usage: $0 toupcamsdk.zip" >&2
exit 1
fi
zip=$(cd $(dirname "$zip"); /bin/pwd)/$(basename "$zip")
SRC=$(cd $(dirname "$0")/..; /bin/pwd)
TMP=/tmp/toupcamsdk.$$
trap "rm -rf $TMP" INT TERM QUIT EXIT
mkdir -p $TMP
cd $TMP
unzip "$zip"
# includes
cp ./inc/toupcam.h "$SRC"/cameras/
# Windows libs
cp ./win/x86/toupcam.dll "$SRC"/WinLibs/
cp ./win/x86/toupcam.lib "$SRC"/cameras/
# Linux libs
for arch in x86 x64 armhf armel arm64; do
cp ./linux/$arch/libtoupcam.so "$SRC"/cameras/toupcam/linux/$arch/
done
# Mac
cp ./mac/libtoupcam.dylib "$SRC"/cameras/toupcam/mac/
|
OpenPHDGuiding/phd2
|
build/unpack_toupcam_sdk.sh
|
Shell
|
bsd-3-clause
| 641 |
#!/bin/sh
export ALINOUS_HOME=${OPENSHIFT_ALINOUS_DIR}ALINOUS_HOME/
export CATALINA_PID=${OPENSHIFT_ALINOUS_DIR}run/alinous.pid
|
alinous-core/scalable-alinous-cartridge
|
versions/apache-tomcat-7.0.55/bin/setenv.sh
|
Shell
|
mit
| 130 |
#!/bin/bash
GHCID_FILE=./ghcid.txt
echo '...' > "$GHCID_FILE"
emacsclient "$GHCID_FILE" &
COMMAND='nix-shell --run "cabal repl enumerate"'
ghcid -o "$GHCID_FILE" --command "$COMMAND"
|
sboosali/enumerate
|
watch.sh
|
Shell
|
mit
| 187 |
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