Mercurial > repos > pjbriggs > amplicon_analysis_pipeline
changeset 44:213b5cdecb70 draft
planemo upload for repository https://github.com/pjbriggs/Amplicon_analysis-galaxy commit a0f1569b4882ca4f9cee613615fe75771bbf0b23-dirty
| author | pjbriggs |
|---|---|
| date | Mon, 09 Dec 2019 13:00:31 +0000 |
| parents | 496cc0ddce3d |
| children | 4bfa62618f7c |
| files | install_amplicon_analysis-1.3.5.sh |
| diffstat | 1 files changed, 6 insertions(+), 1 deletions(-) [+] |
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--- a/install_amplicon_analysis-1.3.5.sh Thu Dec 05 13:43:12 2019 +0000 +++ b/install_amplicon_analysis-1.3.5.sh Mon Dec 09 13:00:31 2019 +0000 @@ -101,7 +101,7 @@ rewrite_conda_shebangs echo "ok" echo -n "Adding conda bin to PATH..." - PATH=${CONDA_BIN}:$PATH + export PATH=${CONDA_BIN}:$PATH echo "ok" cd $cwd rm -rf $wd/* @@ -142,6 +142,11 @@ - bioconductor-biomformat=1.8.0 EOF ${CONDA} env create --name "${ENV_NAME}" -f environment.yml + if [ $? -ne 0 ] ; then + fail "Non-zero exit status from 'conda env create'" + elif [ ! -e "${ENV_DIR}" ] ; then + fail "Failed to create conda environment: ${ENV_DIR} not found" + fi echo Created conda environment in ${ENV_DIR} cd $cwd rm -rf $wd/*