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+ name : binary tarball
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+
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+ on :
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+ workflow_dispatch :
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+ release :
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+ branches : [ master ]
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+ repository_dispatch :
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+ types : [linux-binary-test, install-test]
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+ schedule :
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+ - cron : ' 15 15 * * *' # 3:15pm every day
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+ jobs :
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+ build :
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+ runs-on : ubuntu-latest
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+ steps :
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+ - uses : actions/checkout@v3
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+ - name : prerequisites
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+ run : |
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+ sudo apt-get update
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+ sudo apt-get install -y ncbi-blast+
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+ - name : download
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+ run : bash -x .github/workflows/get_binary_release.sh > dirname
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+ - name :
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+ run : stxtyper_v*/stxtyper -v
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+ - name : run tests included with distribution
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+ run : |
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+ directory=$(cat dirname)
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+ cd $directory
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+ ./test_stxtyper.sh
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+ #! /bin/bash
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+ # found and lightly modified these functions
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+ get_latest_release () {
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+ curl --silent " https://api.github.com/repos/$1 /releases/latest" |
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+ grep ' "tag_name":' |
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+ cut -d ' "' -f 4
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+ }
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+
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+ get_tarball_url () {
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+ curl --silent " https://api.github.com/repos/$1 /releases/latest" |
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+ fgrep ' "browser_download_url":' |
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+ cut -d ' "' -f 4
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+ }
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+
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+
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+ release=$( get_latest_release ncbi/stxtyper)
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+ URL=$( get_tarball_url ncbi/stxtyper)
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+
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+ >&2 echo " Downloading StxTyper version $release "
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+ >&2 echo " Binaries from $URL "
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+
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+ # download and unpack AMRFinder binaries
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+ curl --silent -L -O $URL
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+ tarball_name=$( echo $URL | perl -pe ' s#^.*/(.*)#\1#' )
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+ tar xfz $tarball_name
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+ rm $tarball_name
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+ directory=$( echo $tarball_name | sed ' s/.tar.gz//' )
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+ echo $directory
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