Mercurial > repos > galaxyp > openms_spectrastsearchadapter
comparison generate.sh @ 9:7e2e9379aec7 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 6e8b69ee3aff3c93f745a5de11cc9169130f2e5e"
author | galaxyp |
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date | Thu, 24 Sep 2020 12:12:19 +0000 |
parents | 28e96ae21a44 |
children | 27ddea86fe90 |
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8:28e96ae21a44 | 9:7e2e9379aec7 |
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65 if [[ "$?" -ne "0" ]]; then >&2 echo 'CTD -> XML conversion failed'; >&2 echo -e "stderr:\n$(cat convert.err)"; fi | 65 if [[ "$?" -ne "0" ]]; then >&2 echo 'CTD -> XML conversion failed'; >&2 echo -e "stderr:\n$(cat convert.err)"; fi |
66 conda deactivate | 66 conda deactivate |
67 | 67 |
68 patch PepNovoAdapter.xml < PepNovoAdapter.patch | 68 patch PepNovoAdapter.xml < PepNovoAdapter.patch |
69 patch OMSSAAdapter.xml < OMSSAAdapter.patch | 69 patch OMSSAAdapter.xml < OMSSAAdapter.patch |
70 patch -p0 <404-urls.patch | |
70 | 71 |
71 # #-b version log debug test in_type executable pepnovo_executable param_model_directory rt_concat_trafo_out param_id_pool | 72 # #-b version log debug test in_type executable pepnovo_executable param_model_directory rt_concat_trafo_out param_id_pool |
72 | 73 |
73 # for i in A-E F-H I-L M-N O-P Q-Z | 74 # for i in A-E F-H I-L M-N O-P Q-Z |
74 # do | 75 # do |