Mercurial > repos > peterjc > seq_select_by_id

comparison tools/filters/seq_select_by_id.txt @ 1:50a8a6917a9c draft

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Uploaded update (v0.0.3) to ignore blank lines in the ID file
author peterjc
date Fri, 18 May 2012 12:25:12 -0400
parents 838b9bebfa3c
children 28d52478ace9
comparison
equal deleted inserted replaced
0:838b9bebfa3c 1:50a8a6917a9c
1 Galaxy tool to select FASTA, FASTQ or SFF sequences by ID 1 Galaxy tool to select FASTA, QUAL, FASTQ or SFF sequences by ID
2 ========================================================= 2 ===============================================================
3 3
4 This tool is copyright 2011 by Peter Cock, The James Hutton Institute 4 This tool is copyright 2011 by Peter Cock, The James Hutton Institute
5 (formerly SCRI, Scottish Crop Research Institute), UK. All rights reserved. 5 (formerly SCRI, Scottish Crop Research Institute), UK. All rights reserved.
6 See the licence text below. 6 See the licence text below.
7 7
24 for calling sff_extract.py for converting SFF to FASTQ or FASTA + QUAL. 24 for calling sff_extract.py for converting SFF to FASTQ or FASTA + QUAL.
25 25
26 You will also need to modify the tools_conf.xml file to tell Galaxy to offer the 26 You will also need to modify the tools_conf.xml file to tell Galaxy to offer the
27 tool. One suggested location is in the filters section. Simply add the line: 27 tool. One suggested location is in the filters section. Simply add the line:
28 28
29 <tool file="filters/sff_select_by_id.xml" /> 29 <tool file="filters/seq_select_by_id.xml" />
30 30
31 You will also need to install Biopython 1.54 or later. That's it. 31 You will also need to install Biopython 1.54 or later. That's it.
32 32
33 33
34 History 34 History
35 ======= 35 =======
36 36
37 v0.0.1 - Initial version. 37 v0.0.1 - Initial version.
38 38 v0.0.3 - Ignore blank lines in input
39 39
40 Developers 40 Developers
41 ========== 41 ==========
42 42
43 This script and related tools are being developed on the following hg branch: 43 This script and related tools are being developed on the following hg branch: