diff options
| author | Bryan Galdrikian <[email protected]> | 2018-07-30 15:17:29 -0700 |
|---|---|---|
| committer | Bryan Galdrikian <[email protected]> | 2018-07-30 15:17:29 -0700 |
| commit | a4bb63f12fd702384f9ffcf4ec52003eb5e7bcc9 (patch) | |
| tree | deda7808bdda29348107df252b2f5b4700b4a27a /buildtools | |
| parent | Fixing path to BlastTool in README (diff) | |
| download | blast-a4bb63f12fd702384f9ffcf4ec52003eb5e7bcc9.tar.xz blast-a4bb63f12fd702384f9ffcf4ec52003eb5e7bcc9.zip | |
Fixing line endings in buildtools/packman5/packman
Diffstat (limited to 'buildtools')
| -rwxr-xr-x | buildtools/packman5/packman | 198 |
1 files changed, 99 insertions, 99 deletions
diff --git a/buildtools/packman5/packman b/buildtools/packman5/packman index 0b10d9e..c16a2a7 100755 --- a/buildtools/packman5/packman +++ b/buildtools/packman5/packman @@ -1,99 +1,99 @@ -#!/bin/bash
-
-PM_PACKMAN_VERSION=5.2.1
-
-# Specify where packman command exists
-export PM_INSTALL_PATH=$(dirname ${BASH_SOURCE})
-
-# The packages root may already be configured by the user
-if [ -z "$PM_PACKAGES_ROOT" ]; then
- # Set variable permanently using .profile for this user
- echo "export PM_PACKAGES_ROOT=\$HOME/packman-repo" >> ~/.profile
- # Set variable temporarily in this process so that the following execution will work
- export PM_PACKAGES_ROOT="${HOME}/packman-repo"
-fi
-
-# Ensure the packages root path exists:
-if [ ! -d "$PM_PACKAGES_ROOT" ]; then
- echo "Creating packman packages repository at $PM_PACKAGES_ROOT"
- mkdir -p "$PM_PACKAGES_ROOT"
-fi
-
-# The packman module may be externally configured
-if [ -z "$PM_MODULE_EXT" ]; then
- PM_MODULE_DIR="$PM_PACKAGES_ROOT/packman-common/$PM_PACKMAN_VERSION"
- export PM_MODULE="$PM_MODULE_DIR/packman.py"
-else
- export PM_MODULE="$PM_MODULE_EXT"
-fi
-
-fetch_file_from_s3()
-{
- SOURCE=$1
- SOURCE_URL=http://packman.s3.amazonaws.com/$SOURCE
- TARGET=$2
- echo "Fetching $SOURCE from S3 ..."
- if command -v wget >/dev/null 2>&1; then
- wget --quiet -O$TARGET $SOURCE_URL
- else
- curl -o $TARGET $SOURCE_URL -s -S
- fi
-}
-
-# Ensure the packman package exists:
-if [ ! -f "$PM_MODULE" ]; then
- PM_MODULE_PACKAGE="packman-common@$PM_PACKMAN_VERSION.zip"
- TARGET="/tmp/$PM_MODULE_PACKAGE"
- # We always fetch packman from S3:
- fetch_file_from_s3 $PM_MODULE_PACKAGE $TARGET
- if [ "$?" -eq "0" ]; then
- echo "Unpacking ..."
- mkdir -p "$PM_MODULE_DIR"
- unzip -q $TARGET -d "$PM_MODULE_DIR"
- rm $TARGET
- else
- echo "Failure while fetching packman module from S3!"
- exit 1
- fi
-fi
-
-# For now assume python is installed on the box and we just need to find it
-if command -v python2.7 >/dev/null 2>&1; then
- export PM_PYTHON=python2.7
-elif command -v python2 >/dev/null 2>&1; then
- export PM_PYTHON=python2
-else
- export PM_PYTHON=python
-fi
-
-# Ensure 7za package exists:
-PM_7za_VERSION=16.02.2
-export PM_7za_PATH="$PM_PACKAGES_ROOT/chk/7za/$PM_7za_VERSION"
-if [ ! -f "$PM_7za_PATH" ]; then
- $PM_PYTHON "$PM_MODULE" install 7za $PM_7za_VERSION -r packman:cloudfront
- if [ "$?" -ne 0 ]; then
- echo "Failure while installing required 7za package"
- exit 1
- fi
-fi
-
-# Generate temporary file name for environment variables:
-PM_VAR_PATH=`mktemp -u -t tmp.XXXXX.$$.pmvars`
-
-$PM_PYTHON -u "$PM_MODULE" $* --var-path="$PM_VAR_PATH"
-exit_code=$?
-# Export the variables if the file was used and remove the file:
-if [ -f "$PM_VAR_PATH" ]; then
- while read -r line
- do
- if [ ${#line} -gt 0 ]; then
- export "$line"
- fi
- done < "$PM_VAR_PATH"
- rm -f "$PM_VAR_PATH"
-fi
-
-# Return the exit code from python
-if [ "$exit_code" != 0 ]; then
- exit "$exit_code"
-fi
+#!/bin/bash + +PM_PACKMAN_VERSION=5.2.1 + +# Specify where packman command exists +export PM_INSTALL_PATH=$(dirname ${BASH_SOURCE}) + +# The packages root may already be configured by the user +if [ -z "$PM_PACKAGES_ROOT" ]; then + # Set variable permanently using .profile for this user + echo "export PM_PACKAGES_ROOT=\$HOME/packman-repo" >> ~/.profile + # Set variable temporarily in this process so that the following execution will work + export PM_PACKAGES_ROOT="${HOME}/packman-repo" +fi + +# Ensure the packages root path exists: +if [ ! -d "$PM_PACKAGES_ROOT" ]; then + echo "Creating packman packages repository at $PM_PACKAGES_ROOT" + mkdir -p "$PM_PACKAGES_ROOT" +fi + +# The packman module may be externally configured +if [ -z "$PM_MODULE_EXT" ]; then + PM_MODULE_DIR="$PM_PACKAGES_ROOT/packman-common/$PM_PACKMAN_VERSION" + export PM_MODULE="$PM_MODULE_DIR/packman.py" +else + export PM_MODULE="$PM_MODULE_EXT" +fi + +fetch_file_from_s3() +{ + SOURCE=$1 + SOURCE_URL=http://packman.s3.amazonaws.com/$SOURCE + TARGET=$2 + echo "Fetching $SOURCE from S3 ..." + if command -v wget >/dev/null 2>&1; then + wget --quiet -O$TARGET $SOURCE_URL + else + curl -o $TARGET $SOURCE_URL -s -S + fi +} + +# Ensure the packman package exists: +if [ ! -f "$PM_MODULE" ]; then + PM_MODULE_PACKAGE="packman-common@$PM_PACKMAN_VERSION.zip" + TARGET="/tmp/$PM_MODULE_PACKAGE" + # We always fetch packman from S3: + fetch_file_from_s3 $PM_MODULE_PACKAGE $TARGET + if [ "$?" -eq "0" ]; then + echo "Unpacking ..." + mkdir -p "$PM_MODULE_DIR" + unzip -q $TARGET -d "$PM_MODULE_DIR" + rm $TARGET + else + echo "Failure while fetching packman module from S3!" + exit 1 + fi +fi + +# For now assume python is installed on the box and we just need to find it +if command -v python2.7 >/dev/null 2>&1; then + export PM_PYTHON=python2.7 +elif command -v python2 >/dev/null 2>&1; then + export PM_PYTHON=python2 +else + export PM_PYTHON=python +fi + +# Ensure 7za package exists: +PM_7za_VERSION=16.02.2 +export PM_7za_PATH="$PM_PACKAGES_ROOT/chk/7za/$PM_7za_VERSION" +if [ ! -f "$PM_7za_PATH" ]; then + $PM_PYTHON "$PM_MODULE" install 7za $PM_7za_VERSION -r packman:cloudfront + if [ "$?" -ne 0 ]; then + echo "Failure while installing required 7za package" + exit 1 + fi +fi + +# Generate temporary file name for environment variables: +PM_VAR_PATH=`mktemp -u -t tmp.XXXXX.$$.pmvars` + +$PM_PYTHON -u "$PM_MODULE" $* --var-path="$PM_VAR_PATH" +exit_code=$? +# Export the variables if the file was used and remove the file: +if [ -f "$PM_VAR_PATH" ]; then + while read -r line + do + if [ ${#line} -gt 0 ]; then + export "$line" + fi + done < "$PM_VAR_PATH" + rm -f "$PM_VAR_PATH" +fi + +# Return the exit code from python +if [ "$exit_code" != 0 ]; then + exit "$exit_code" +fi |