Mercurial > repos > kkonganti > cfsan_centriflaken
changeset 66:ccc58509834c
"planemo upload"
| author | kkonganti |
|---|---|
| date | Wed, 13 Jul 2022 13:47:12 -0400 |
| parents | ec3fca35a622 |
| children | 04c9f550eb08 |
| files | cfsan_centriflaken.xml |
| diffstat | 1 files changed, 11 insertions(+), 1 deletions(-) [+] |
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--- a/cfsan_centriflaken.xml Wed Jul 13 13:35:25 2022 -0400 +++ b/cfsan_centriflaken.xml Wed Jul 13 13:47:12 2022 -0400 @@ -13,7 +13,7 @@ #for $key in $input_read_type_cond.input.keys() ln -sf '$input_read_type_cond.input[$key]' './cpipes-input/$key'; #end for - #else: + #elif (str($input_read_type_cond.input_read_type) == "paired"): #for $key in $input_read_type_cond.input_pair.keys() #set $read_R1 = os.path.basename($input_read_type_cond.input_pair[$key]['forward']) #set $read_R2 = os.path.basename($input_read_type_cond.input_pair[$key]['reverse']) @@ -94,6 +94,16 @@ <when value="paired"> <param name="input_pair" type="data_collection" collection_type="list:paired" format="fastq,fastq.gz,fastqsanger.gz,fastqsanger" label="List of Dataset pairs" /> + <conditional name="pipeline_cond"> + <param name="pipeline" type="select" label="CPIPES Workflow name" + help="centriflaken_hy selected for paired-end short reads."> + <option value="centriflaken_hy" selected="true">centriflaken_hy</option> + </param> + <when value="centriflaken_hy"> + <param name="long_read_platform" value="N/A" type="text" optional="true" label="Mention long read sequencing platform and type" + help="THIS OPTION IS IGNORED IF THE INPUT READS ARE SHORT READS."/> + </when> + </conditional> <param name="fq_suffix" value=".fastq.gz" type="text" label="Suffix of the R1 FASTQ or Unpaired FASTQ"/> <param name="fq2_suffix" value="_R2_001.fastq.gz" type="text" label="Suffix of the R2 FASTQ"/> </when>