Mercurial > repos > abims-sbr > cds_search

annotate scripts/dico.py @ 10:3d00be2d05f3 draft

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planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 7d45b8e07bf99420df9b195617515b8002b5eaf3
author abims-sbr
date Fri, 06 Jul 2018 02:52:15 -0400
parents 35e39b4128ba
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
1 import string, itertools
3
ff98ed7849fa planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
parents:
diff changeset
2
7
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
3 def dico(F1):
3
ff98ed7849fa planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
parents:
diff changeset
4 dicoco = {}
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35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
5 with open(F1, "r") as file:
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
6 for name, query in itertools.izip_longest(*[file]*2):
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
7 if name[0] == ">":
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
8 fasta_name_query = name[:-1]
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
9 Sn = string.split(fasta_name_query, "||")
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
10 fasta_name_query = Sn[0]
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
11 fasta_seq_query = query[:-1]
35e39b4128ba planemo upload for repository https://github.com/abims-sbr/adaptsearch commit b7a3030ea134b5dfad89b1a869db659d72d1145c
abims-sbr
parents: 3
diff changeset
12 dicoco[fasta_name_query] = fasta_seq_query
3
ff98ed7849fa planemo upload for repository https://github.com/abims-sbr/adaptsearch commit cf1b9c905931ca2ca25faa4844d45c908756472f
abims-sbr
parents:
diff changeset
13 return(dicoco)