Mercurial > repos > da-intersect > test_ap11
changeset 37:14ccf446423a
Remove the "jars" folder
| author | da-intersect |
|---|---|
| date | Mon, 06 May 2013 20:02:05 -0400 |
| parents | 2c43e7613b2f |
| children | ca878d6d0bd1 |
| files | jars/protein_generator.jar jars/results_analyser.jar jars/samifier.jar jars/virtual_protein_merger.jar protein_generator.sh protein_merger.sh result_analyser.sh samifier.sh |
| diffstat | 8 files changed, 0 insertions(+), 127 deletions(-) [+] |
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--- a/protein_generator.sh Tue Apr 30 21:59:55 2013 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,25 +0,0 @@ -#!/bin/bash - -if (type -p java >> /dev/null); then - _java=java -elif [[ -n "$JAVA_HOME" ]] && [[ -x "$JAVA_HOME/bin/java" ]]; then - _java="$JAVA_HOME/bin/java" -else - echo "You must install java before runing this tool" >&2 - exit 1 -fi - -if [[ "$_java" ]]; then - version=$("$_java" -version 2>&1 | awk -F '"' '/version/ {print $2}') - if ! [[ "$version" > "1.6" ]]; then - echo "Java version should be > 1.6" >&2 - exit 1 - fi -fi - -DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )" - -jar_path="${DIR}/jars/${1}" -shift - -java -Xmx3072M -jar $jar_path $@
--- a/protein_merger.sh Tue Apr 30 21:59:55 2013 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,34 +0,0 @@ -#!/bin/bash - -# Check java version -if (type -p java >> /dev/null); then - _java=java -elif [[ -n "$JAVA_HOME" ]] && [[ -x "$JAVA_HOME/bin/java" ]]; then - _java="$JAVA_HOME/bin/java" -else - echo "You must install java before runing this tool" - exit 1 -fi -if [[ "$_java" ]]; then - version=$("$_java" -version 2>&1 | awk -F '"' '/version/ {print $2}') - if ! [[ "$version" > "1.6" ]]; then - echo "Java version should be > 1.6" - exit 1 - fi -fi - -# Locate the jar directory -DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )" -jar_path="${DIR}/jars/${1}" -shift - -# Untar the chromosome file into a temporary directory -tar_file="$1" -shift -tmp_dir="/tmp/$(basename "$tar_file")" -mkdir -p $tmp_dir -tar -C $tmp_dir -xvf $tar_file - -# Run the jar and remove the temporary directory -java -Xmx3072M -jar $jar_path $@ -c "$tmp_dir" -rm -rf $tmp_dir
--- a/result_analyser.sh Tue Apr 30 21:59:55 2013 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,34 +0,0 @@ -#!/bin/bash - -# Check java version -if (type -p java >> /dev/null); then - _java=java -elif [[ -n "$JAVA_HOME" ]] && [[ -x "$JAVA_HOME/bin/java" ]]; then - _java="$JAVA_HOME/bin/java" -else - echo "You must install java before runing this tool" - exit 1 -fi -if [[ "$_java" ]]; then - version=$("$_java" -version 2>&1 | awk -F '"' '/version/ {print $2}') - if ! [[ "$version" > "1.6" ]]; then - echo "Java version should be > 1.6" - exit 1 - fi -fi - -# Locate the jar directory -DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )" -jar_path="${DIR}/jars/${1}" -shift - -# Untar the chromosome file into a temporary directory -tar_file="$1" -shift -tmp_dir="/tmp/$(basename "$tar_file")" -mkdir -p $tmp_dir -tar -C $tmp_dir -xvf $tar_file - -# Run the jar and remove the temporary directory -java -Xmx3072M -jar $jar_path $@ -c "$tmp_dir" -rm -rf $tmp_dir
--- a/samifier.sh Tue Apr 30 21:59:55 2013 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,34 +0,0 @@ -#!/bin/bash - -# Check java version -if (type -p java >> /dev/null); then - _java=java -elif [[ -n "$JAVA_HOME" ]] && [[ -x "$JAVA_HOME/bin/java" ]]; then - _java="$JAVA_HOME/bin/java" -else - echo "You must install java before runing this tool" - exit 1 -fi -if [[ "$_java" ]]; then - version=$("$_java" -version 2>&1 | awk -F '"' '/version/ {print $2}') - if ! [[ "$version" > "1.6" ]]; then - echo "Java version should be > 1.6" - exit 1 - fi -fi - -# Locate the jar directory -DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )" -jar_path="${DIR}/jars/${1}" -shift - -# Untar the chromosome file into a temporary directory -tar_file="$1" -shift -tmp_dir="/tmp/$(basename "$tar_file")" -mkdir -p $tmp_dir -tar -C $tmp_dir -xvf $tar_file - -# Run the jar and remove the temporary directory -java -Xmx3072M -jar $jar_path $@ -c "$tmp_dir" -rm -rf $tmp_dir