Mercurial > repos > biomonika > test_dependency
changeset 0:7112ee9a7ada
first
| author | biomonika <biomonika@psu.edu> |
|---|---|
| date | Thu, 21 Aug 2014 21:22:28 -0400 |
| parents | |
| children | 6aeee4ee8cc8 |
| files | test_dependency.sh test_dependency.xml tool_dependencies.xml |
| diffstat | 3 files changed, 40 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test_dependency.sh Thu Aug 21 21:22:28 2014 -0400 @@ -0,0 +1,13 @@ +#!/bin/bash + +results=$1 #X-linked candidates written here + +fake_input1=${2} +fake_input2=${3} + +echo "LINKYX_PATH: " $LINKYX_PATH + +cat ${LINKYX_PATH}/demo_files/reference.fasta >>$results + + +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test_dependency.xml Thu Aug 21 21:22:28 2014 -0400 @@ -0,0 +1,22 @@ +<tool id="test_dependency" name="test_dependency"> + <description>Test toolshed dependency</description> + <command interpreter="bash">test_dependency.sh $output $input1 $input2</command> + <inputs> + <param format="fastq" name="input1" type="data" label="Fake left reads"/> + <param format="fastq" name="input2" type="data" label="Fake right reads"/> + </inputs> + <outputs> + <data format="fasta" name="output" /> + </outputs> + + <tests> + <test> + <output name="out_file1" file="Y_results.txt"/> + </test> + </tests> + + <help> + Test dependency + </help> + + </tool> \ No newline at end of file
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Thu Aug 21 21:22:28 2014 -0400 @@ -0,0 +1,5 @@ +<tool_dependency> + <set_environment version="1.0"> + <environment_variable name="LINKYX_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable> + </set_environment> +</tool_dependency>