Previous changeset 5:a27654fc4270 (2019-04-03) |
Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/flash commit 7e92326c8481e440066c4aabb13d373dec570e2e |
modified:
flash.xml |
b |
diff -r a27654fc4270 -r 01a4ebf1f237 flash.xml --- a/flash.xml Wed Apr 03 19:49:20 2019 -0400 +++ b/flash.xml Wed Jul 06 13:27:05 2022 +0000 |
b |
@@ -1,6 +1,8 @@ -<?xml version="1.0"?> -<tool id="flash" name="FLASH" version="@VERSION@.4"> +<tool id="flash" name="FLASH" version="@VERSION@.4" profile="21.05"> <description>adjust length of short reads</description> + <xrefs> + <xref type="bio.tools">flash</xref> + </xrefs> <macros> <token name="@VERSION@">1.2.11</token> </macros> @@ -97,15 +99,15 @@ </data> </outputs> <tests> - <test> + <test expect_num_outputs="5"> <param name="select_layout" value="individual" /> <param name="forward" value="flash_forward_in1.fastqsanger" ftype="fastqsanger" /> <param name="reverse" value="flash_reverse_in1.fastqsanger" ftype="fastqsanger" /> <param name="generate_histogram" value="false" /> <param name="save_log" value="true" /> - <output name="merged_paired_reads" file="flash_merged_out1.fastqsanger" ftype="fastqsanger" /> - <output name="unmerged_paired_reads_f" file="flash_unmerged_f_out1.fastqsanger" ftype="fastqsanger" /> - <output name="unmerged_paired_reads_r" file="flash_unmerged_r_out1.fastqsanger" ftype="fastqsanger" /> + <output name="merged_paired_reads" file="flash_merged_out1.fastqsanger" ftype="fastqsanger" sort="true" /> + <output name="unmerged_paired_reads_f" file="flash_unmerged_f_out1.fastqsanger" ftype="fastqsanger" sort="true" /> + <output name="unmerged_paired_reads_r" file="flash_unmerged_r_out1.fastqsanger" ftype="fastqsanger" sort="true" /> <output name="hist" file="flash_hist_out1.tabular" /> <output name="log"> <assert_contents> @@ -113,16 +115,16 @@ </assert_contents> </output> </test> - <test> + <test expect_num_outputs="10"> <param name="select_layout" value="individual" /> <param name="forward" value="flash_forward_in2.fastqsanger" ftype="fastqsanger" /> <param name="reverse" value="flash_reverse_in2.fastqsanger" ftype="fastqsanger" /> <param name="allow_outies" value="true" /> <param name="generate_histogram" value="true" /> <param name="save_log" value="true" /> - <output name="merged_paired_reads" file="flash_merged_out2.fastqsanger" ftype="fastqsanger" /> - <output name="unmerged_paired_reads_f" file="flash_unmerged_f_out2.fastqsanger" ftype="fastqsanger" /> - <output name="unmerged_paired_reads_r" file="flash_unmerged_r_out2.fastqsanger" ftype="fastqsanger" /> + <output name="merged_paired_reads" file="flash_merged_out2.fastqsanger" ftype="fastqsanger" sort="true" /> + <output name="unmerged_paired_reads_f" file="flash_unmerged_f_out2.fastqsanger" ftype="fastqsanger" sort="true" /> + <output name="unmerged_paired_reads_r" file="flash_unmerged_r_out2.fastqsanger" ftype="fastqsanger" sort="true" /> <output name="hist" file="flash_hist_out2.tabular" /> <output name="histogram" file="flash_hist_out2.txt" /> <output name="hist_in" file="flash_hist_in_out2.tabular" /> @@ -135,7 +137,7 @@ </assert_contents> </output> </test> - <test> + <test expect_num_outputs="5"> <param name="select_layout" value="collection" /> <param name="generate_histogram" value="false" /> <param name="reads"> @@ -144,12 +146,12 @@ <element name="reverse" value="flash_reverse_in3.fastqillumina" ftype="fastqillumina" /> </collection> </param> - <output name="merged_reads" file="flash_merged_out3.fastqillumina" ftype="fastqillumina" /> - <output name="unmerged_reads_f" file="flash_unmerged_f_out3.fastqillumina" ftype="fastqillumina" /> - <output name="unmerged_reads_r" file="flash_unmerged_r_out3.fastqillumina" ftype="fastqillumina" /> + <output name="merged_reads" file="flash_merged_out3.fastqillumina" ftype="fastqillumina" sort="true" /> + <output name="unmerged_reads_f" file="flash_unmerged_f_out3.fastqillumina" ftype="fastqillumina" sort="true" /> + <output name="unmerged_reads_r" file="flash_unmerged_r_out3.fastqillumina" ftype="fastqillumina" sort="true" /> <output name="hist" file="flash_hist_out3.tabular" /> </test> - <test> + <test expect_num_outputs="5"> <param name="select_layout" value="individual" /> <param name="forward" value="flash_forward_in4.fastqsanger.gz" ftype="fastqsanger.gz" /> <param name="reverse" value="flash_reverse_in4.fastqsanger.gz" ftype="fastqsanger.gz" /> @@ -164,7 +166,7 @@ </assert_contents> </output> </test> - <test> + <test expect_num_outputs="5"> <param name="select_layout" value="collection" /> <param name="generate_histogram" value="false" /> <param name="reads"> |