Mercurial > repos > bebatut > humann2
changeset 23:928ad2c3e0c2 draft
planemo upload for repository https://github.com/ASaiM/galaxytools/tree/master/tools/humann2/ commit b'f45f31529390153bdaf93a3c94a65f6888ed484b\n'-dirty
| author | bebatut |
|---|---|
| date | Fri, 03 Mar 2017 07:03:58 -0500 |
| parents | 56e8ce2f3c96 |
| children | 597ea2170ece |
| files | humann2.xml |
| diffstat | 1 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/humann2.xml Fri Mar 03 06:51:09 2017 -0500 +++ b/humann2.xml Fri Mar 03 07:03:58 2017 -0500 @@ -44,7 +44,7 @@ bowtie2-build '$taxo_profile.metaphlan2_db_choice.metaphlan2_db_sequences ref_db/ref_db' && python '$__tool_directory__/transform_json_to_pkl.py' - --json_input '$metaphlan2_db_metadata' + --json_input '$taxo_profile.metaphlan2_db_choice.metaphlan2_db_metadata' --pkl_output 'ref_db/metadata.pkl' && #end if @@ -69,8 +69,8 @@ #else #set $path = $taxo_profile.metaphlan2_db_choice.cached_db.fields.path #set $value = $taxo_profile.metaphlan2_db_choice.cached_db.fields.value - #set $metaphlan_option += " --bowtie2db " + $path/$value - #set $metaphlan_option += " --mpa_pkl " + $path/$value + ".pkl" + #set $metaphlan_option += " --bowtie2db " + '$path/$value' + #set $metaphlan_option += " --mpa_pkl " + '$path' + "/" + '$value' + ".pkl" #end if #end if --metaphlan-options="$metaphlan_option"