annotate fasta_manual_input.xml @ 25:5dba804e6884 draft

planemo upload commit 20bdf879b52796d3fb251a20807191ff02084d3c-dirty
author petr-novak
date Wed, 02 Aug 2023 12:42:08 +0000
parents c2c69c6090f0
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
1 <tool id="fasta_input" name="Fasta interactive input" version="1.0.0">
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
2 <description> Enter fasta file to text window </description>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
3 <command>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
4 echo "${fasta_text}" > ${fasta_file} &amp;&amp;
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
5 sed -i 's/__gt__/>/g' ${fasta_file} &amp;&amp;
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
6 sed -i 's/__cn__/\n/g' ${fasta_file}
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
7 </command>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
8
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
9 <inputs>
9
c2c69c6090f0 Uploaded
petr-novak
parents: 0
diff changeset
10 <param type="text" name="fasta_text" area="True" size="50x150" label="Paste sequences in FASTA format" />
0
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
11 </inputs>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
12
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
13
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
14 <outputs>
9
c2c69c6090f0 Uploaded
petr-novak
parents: 0
diff changeset
15 <data format="fasta" name="fasta_file" label="FASTA sequence manually edited" />
0
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
16 </outputs>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
17
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
18 <help>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
19 This is helper tool to enter fasta sequences manualy
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
20 </help>
a4cd8608ef6b Uploaded
petr-novak
parents:
diff changeset
21 </tool>