Mercurial > repos > cpt > cpt_linear_genome_plot

changeset 3:b79e98299a78 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit b9287cffb7503159debac57d68917f5d337f0c9e-dirty
author cpt
date Fri, 28 Jun 2024 03:17:21 +0000
parents b36bdd17d99a
children 318248986ee7
files dna_features_viewer/biotools.py linear_genome_plot.xml local_requirements.txt
diffstat 3 files changed, 14 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/dna_features_viewer/biotools.py	Fri Jun 28 02:21:43 2024 +0000
+++ b/dna_features_viewer/biotools.py	Fri Jun 28 03:17:21 2024 +0000
@@ -34,9 +34,15 @@
     return complement(sequence)[::-1]
 
 
-aa_short_to_long_form_dict = {
-    _aa1: _aa3[0] + _aa3[1:].lower() for (_aa1, _aa3) in zip(aa1 + "*", aa3 + ["*"])
-}
+if type(aa1) is str and type(aa3) is list:
+    aa_short_to_long_form_dict = {
+        _aa1: _aa3[0] + _aa3[1:].lower() for (_aa1, _aa3) in zip(aa1 + "*", aa3 + ["*"])
+    }
+else:
+    aa_short_to_long_form_dict = {
+        _aa1: _aa3[0] + _aa3[1:].lower()
+        for (_aa1, _aa3) in zip(aa1 + ("*",), aa3 + ("*",))
+    }
 
 
 def translate(dna_sequence, long_form=False):
--- a/linear_genome_plot.xml	Fri Jun 28 02:21:43 2024 +0000
+++ b/linear_genome_plot.xml	Fri Jun 28 03:17:21 2024 +0000
@@ -3,8 +3,7 @@
     <macros>
         <import>macros.xml</import>
     </macros>
-    <expand macro="requirements">
-    </expand>
+    <expand macro="requirements"/>
     <command detect_errors="aggressive"><![CDATA[
 python '$__tool_directory__/linear_genome_plot.py'
 '$input_file'
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/local_requirements.txt	Fri Jun 28 03:17:21 2024 +0000
@@ -0,0 +1,4 @@
+biopython==1.77
+cpt_gffparser==1.2.2
+pandas==1.0.5
+matplotlib==3.3.2
\ No newline at end of file