Mercurial > repos > florianbegusch > qiime2_suite
comparison qiime2/qiime_diversity_core-metrics.xml @ 4:914fa4daf16a draft
Fixes
| author | florianbegusch |
|---|---|
| date | Wed, 31 Jul 2019 03:06:00 -0400 |
| parents | 51025741f326 |
| children | de4c22a52df4 |
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| 3:558645416841 | 4:914fa4daf16a |
|---|---|
| 17 | 17 |
| 18 #if $input_files_mmetadatafile: | 18 #if $input_files_mmetadatafile: |
| 19 #def list_dict_to_string(list_dict): | 19 #def list_dict_to_string(list_dict): |
| 20 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') | 20 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') |
| 21 #for d in list_dict[1:]: | 21 #for d in list_dict[1:]: |
| 22 #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name') | 22 #set $file_list = $file_list + ' --m-metadata-file=' + d['additional_input'].__getattr__('file_name') |
| 23 #end for | 23 #end for |
| 24 #return $file_list | 24 #return $file_list |
| 25 #end def | 25 #end def |
| 26 | |
| 27 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) | 26 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) |
| 28 #end if | 27 #end if |
| 29 | 28 |
| 30 --o-rarefied-table=orarefiedtable | 29 --o-rarefied-table=orarefiedtable |
| 31 --o-observed-otus-vector=oobservedotusvector | 30 --o-observed-otus-vector=oobservedotusvector |
| 55 ]]></command> | 54 ]]></command> |
| 56 <inputs> | 55 <inputs> |
| 57 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples over which diversity metrics should be computed. [required]" name="itable" optional="False" type="data"/> | 56 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table containing the samples over which diversity metrics should be computed. [required]" name="itable" optional="False" type="data"/> |
| 58 <param label="--p-sampling-depth: INTEGER Range(1, None) The total frequency that each sample should be rarefied to prior to computing diversity metrics. [required]" name="psamplingdepth" optional="False" min="1" value="" type="integer"/> | 57 <param label="--p-sampling-depth: INTEGER Range(1, None) The total frequency that each sample should be rarefied to prior to computing diversity metrics. [required]" name="psamplingdepth" optional="False" min="1" value="" type="integer"/> |
| 59 | 58 |
| 60 <repeat name="input_files_mmetadatafile" optional="False" title="--m-metadata-file"> | 59 <repeat name="input_files_mmetadatafile" optional="False" title="--m-metadata-file [required]"> |
| 61 <param label="--m-metadata-file: METADATA... (multiple arguments will be merged) The sample metadata to use in the emperor plots. [required]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" /> | 60 <param label="--m-metadata-file: METADATA... (multiple arguments will be merged) The sample metadata to use in the emperor plots. [required]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" /> |
| 62 </repeat> | 61 </repeat> |
| 63 | 62 |
| 64 </inputs> | 63 </inputs> |
| 65 <outputs> | 64 <outputs> |