Mercurial > repos > iuc > hmmer_hmmemit
comparison hmmemit.xml @ 5:9415f29a3926 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit 7d31599a80c15f11ed00b2b3cbfb77ed6dfc8f3d"
author | iuc |
---|---|
date | Tue, 16 Jun 2020 05:27:39 -0400 |
parents | 1cd4d0cf8fd9 |
children | e9d622609fb5 |
comparison
equal
deleted
inserted
replaced
4:1cd4d0cf8fd9 | 5:9415f29a3926 |
---|---|
73 <option value="--uniglocal">configure profile in unihit glocal mode</option> | 73 <option value="--uniglocal">configure profile in unihit glocal mode</option> |
74 </param> | 74 </param> |
75 </when> | 75 </when> |
76 </conditional> | 76 </conditional> |
77 | 77 |
78 | |
79 <expand macro="seed"/> | 78 <expand macro="seed"/> |
80 </inputs> | 79 </inputs> |
81 <outputs> | 80 <outputs> |
82 <data name="output" format="fasta" label="Sequences generated from $hmmfile.name"> | 81 <data name="output" format="fasta" label="Sequences generated from $hmmfile.name"> |
83 <change_format> | 82 <change_format> |
84 <when input="oformat_select" value="aln" format="stockholm"/> | 83 <when input="oformat.oformat_select" value="aln" format="stockholm"/> |
85 <!-- the rest are fasta --> | 84 <!-- the rest are fasta --> |
86 </change_format> | 85 </change_format> |
87 </data> | 86 </data> |
88 </outputs> | 87 </outputs> |
89 <tests> | 88 <tests> |
90 <test> | 89 <test> |
91 <param name="hmmfile" value="globins4.hmm"/> | 90 <param name="hmmfile" value="globins4.hmm"/> |
92 <param name="oformat_select" value="aln"/> | 91 <param name="oformat_select" value="aln"/> |
93 <param name="N_aln" value="10"/> | 92 <param name="N_aln" value="10"/> |
94 <expand macro="seed_test" /> | 93 <expand macro="seed_test" /> |
95 <output name="output" file="globins4-emit.sto" compare="sim_size"/> | 94 <output name="output" file="globins4-emit.sto" ftype="stockholm" compare="sim_size"> |
95 <assert_contents> | |
96 <has_line_matching expression="# STOCKHOLM.*"/> | |
97 <has_line_matching expression="//"/> | |
98 </assert_contents> | |
99 </output> | |
96 </test> | 100 </test> |
97 <test> | 101 <test> |
98 <param name="hmmfile" value="globins4.hmm"/> | 102 <param name="hmmfile" value="globins4.hmm"/> |
99 <param name="oformat_select" value="fasta"/> | 103 <param name="oformat_select" value="fasta"/> |
100 <param name="N_aln" value="10"/> | 104 <param name="N_aln" value="10"/> |
101 <expand macro="seed_test" /> | 105 <expand macro="seed_test" /> |
102 <output name="output" file="globins4-emit-1.sto" compare="sim_size"/> | 106 <output name="output" file="globins4-emit-1.sto" ftype="fasta" compare="sim_size"> |
107 <assert_contents> | |
108 <has_line_matching expression=">.*"/> | |
109 </assert_contents> | |
110 </output> | |
103 </test> | 111 </test> |
104 </tests> | 112 </tests> |
105 <help><![CDATA[ | 113 <help><![CDATA[ |
106 @HELP_PRE@ | 114 @HELP_PRE@ |
107 | 115 |