Mercurial > repos > jay > pdaug_peptide_structure_builder

changeset 2:8ea9b7321eea draft

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"planemo upload for repository https://github.com/jaidevjoshi83/pdaug commit 8b18552f6d2b2261efebe1075ff4c18a295b94dd"
author jay
date Tue, 29 Dec 2020 18:32:23 +0000
parents 39a014261f29
children 2b05b50ca410
files PDAUG_TSVtoFASTA/PDAUG_TSVtoFASTA.py PDAUG_TSVtoFASTA/test-data/test1/Negative.fasta PDAUG_TSVtoFASTA/test-data/test1/Positive.fasta
diffstat 3 files changed, 4 insertions(+), 48 deletions(-) [+]
line wrap: on
line diff
--- a/PDAUG_TSVtoFASTA/PDAUG_TSVtoFASTA.py	Tue Dec 29 04:16:39 2020 +0000
+++ b/PDAUG_TSVtoFASTA/PDAUG_TSVtoFASTA.py	Tue Dec 29 18:32:23 2020 +0000
@@ -21,14 +21,16 @@
             l.append(line.split('\t')[1].strip('\n').strip('\r'))
         l = list(set(l))
 
+        print(l)
+
         for line in lines:
 
-            if l[0] in line.split('\t')[1].strip('\n').strip('\r'):
+            if l[1] in line.split('\t')[1].strip('\n').strip('\r'):
                 n= n+1
                 of1.write('>peptide_'+str(n)+'_'+str(l[0])+'\n')
                 of1.write(line.split('\t')[0]+'\n')
 
-            if l[1] in line.split('\t')[1].strip('\n').strip('\r'):
+            if l[0] in line.split('\t')[1].strip('\n').strip('\r'):
                 m= m+1
                 of2.write('>peptide_'+str(m)+'_'+str(l[1])+'\n')
                 of2.write(line.split('\t')[0]+'\n')
--- a/PDAUG_TSVtoFASTA/test-data/test1/Negative.fasta	Tue Dec 29 04:16:39 2020 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,24 +0,0 @@
->peptide_1
-GLFDIVKKVVGALG
->peptide_2
-KLLKLLKKKLLK
->peptide_3
-KLLLLKLLK
->peptide_4
-GLFDIVKKVVGALG
->peptide_5
-GLFDIVKKVVGALG
->peptide_6
-KLLKLLKKKLLK
->peptide_7
-KLLLLKLLK
->peptide_8
-GLFDIVKKVVGALG
->peptide_9
-GLFDIVKKVVGALG
->peptide_10
-KLLKLLKKKLLK
->peptide_11
-KLLLLKLLK
->peptide_12
-GLFDIVKKVVGALG
--- a/PDAUG_TSVtoFASTA/test-data/test1/Positive.fasta	Tue Dec 29 04:16:39 2020 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,22 +0,0 @@
->peptide_1
-GLFDIVKKVVGALG
->peptide_2
-KLLKLLKKKLLK
->peptide_3
-KLLLLKLLK
->peptide_4
-GLFDIVKKVVGALG
->peptide_5
-GLFDIVKKVVGALG
->peptide_6
-KLLKLLKKKLLK
->peptide_7
-KLLLLKLLK
->peptide_8
-GLFDIVKKVVGALG
->peptide_9
-KLLKLLKKKLLK
->peptide_10
-KLLLLKLLK
->peptide_11
-GLFDIVKKVVGALG