| Previous changeset 2:74afc47f326c (2017-03-03) Next changeset 4:654b3a274ed5 (2021-07-07) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prinseq/ commit 475b8e0ad3472fb1daab4683530158813b4ef070 |
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modified:
prinseq.xml |
| b |
| diff -r 74afc47f326c -r 02befcb391f5 prinseq.xml --- a/prinseq.xml Fri Mar 03 14:58:49 2017 -0500 +++ b/prinseq.xml Mon May 15 11:03:57 2017 -0400 |
| [ |
| @@ -617,36 +617,36 @@ </inputs> <outputs> - <data format="fastq" name="good_sequence_file" from_work_dir="tmp/good_sequences.fastq" + <data format_source="input_singles" name="good_sequence_file" from_work_dir="tmp/good_sequences.fastq" label="${tool.name} on ${on_string}: Good sequences" > <filter>seq_type['seq_type_opt'] == "single"</filter> </data> - <data format="fastq" name="rejected_sequence_file" from_work_dir="tmp/rejected_sequences.fastq" + <data format_source="input_singles" name="rejected_sequence_file" from_work_dir="tmp/rejected_sequences.fastq" label="${tool.name} on ${on_string}: Rejected sequences" > <filter>seq_type['seq_type_opt'] == "single"</filter> </data> - <data format="fastq" name="good_sequences_1_file" from_work_dir="tmp/good_sequences_1.fastq" + <data format_source="input_mate1" name="good_sequences_1_file" from_work_dir="tmp/good_sequences_1.fastq" label="${tool.name} on ${on_string}: Good sequences for R1" > <filter>seq_type['seq_type_opt'] == "paired"</filter> </data> - <data format="fastq" name="good_sequences_1_singletons_file" from_work_dir="tmp/good_sequences_1_singletons.fastq" + <data format_source="input_mate1" name="good_sequences_1_singletons_file" from_work_dir="tmp/good_sequences_1_singletons.fastq" label="${tool.name} on ${on_string}: Good singleton sequences for R1" > <filter>seq_type['seq_type_opt'] == "paired"</filter> </data> - <data format="fastq" name="rejected_sequence_1_file" from_work_dir="tmp/rejected_sequences_1.fastq" + <data format_source="input_mate1" name="rejected_sequence_1_file" from_work_dir="tmp/rejected_sequences_1.fastq" label="${tool.name} on ${on_string}: Rejected sequences for R1" > <filter>seq_type['seq_type_opt'] == "paired"</filter> </data> - <data format="fastq" name="good_sequences_2_file" from_work_dir="tmp/good_sequences_2.fastq" + <data format_source="input_mate2" name="good_sequences_2_file" from_work_dir="tmp/good_sequences_2.fastq" label="${tool.name} on ${on_string}: Good sequences for R2" > <filter>seq_type['seq_type_opt'] == "paired"</filter> </data> - <data format="fastq" name="good_sequences_2_singletons_file" from_work_dir="tmp/good_sequences_2_singletons.fastq" + <data format_source="input_mate2" name="good_sequences_2_singletons_file" from_work_dir="tmp/good_sequences_2_singletons.fastq" label="${tool.name} on ${on_string}: Good singleton sequences for R2" > <filter>seq_type['seq_type_opt'] == "paired"</filter> </data> - <data format="fastq" name="rejected_sequence_2_file" from_work_dir="tmp/rejected_sequences_2.fastq" + <data format_source="input_mate2" name="rejected_sequence_2_file" from_work_dir="tmp/rejected_sequences_2.fastq" label="${tool.name} on ${on_string}: Rejected sequences for R2" > <filter>seq_type['seq_type_opt'] == "paired"</filter> </data> @@ -658,7 +658,7 @@ <tests> <test> <param name='seq_type_opt' value="single"/> - <param name="input_singles" value="prinseq_input_sequences.fastq"/> + <param name="input_singles" value="prinseq_input_sequences.fastq" ftype="fastqsanger"/> <param name='apply_filter_treatments' value="true"/> <param name='apply_length_filter_treatments' value="true"/> <param name='apply_min_length_filter_treatments' value="true"/> @@ -691,7 +691,7 @@ <param name="window_quality_trimming_treatments" value="1"/> <param name="step_quality_trimming_treatments" value="1"/> - <output name="good_sequence_file" file="prinseq_good_sequences.fastq"/> + <output name="good_sequence_file" file="prinseq_good_sequences.fastq" ftype="fastqsanger"/> </test> </tests> |