← Back to branch summary

~ubuntu-branches/ubuntu/trusty/python-biopython/trusty-proposed

« back to all changes in this revision

Viewing changes to Bio/SeqIO/__init__.py

  • Committer: Bazaar Package Importer
  • Author(s): Philipp Benner
  • Date: 2009-08-24 09:29:27 UTC
  • mfrom: (1.3.3 upstream) (4.1.4 sid)
  • Revision ID: james.westby@ubuntu.com-20090824092927-2wwh36vwnfgn98kl
Tags: 1.51final-2
http://bugs.debian.org/543236
Merged patch from ubuntu to make the package ready for
python2.6 (Closes: #543236).

Show diffs side-by-side

added added

removed removed

Lines of Context:
Bio/SeqIO/__init__.py
145
145
             lines of sequence.
146
146
 - fastq   - A "FASTA like" format used by Sanger which also stores PHRED
147
147
             sequence quality values (with an ASCII offset of 33).
 
148
 - fastq-sanger - An alias for "fastq" for consistency with BioPerl and EMBOSS
148
149
 - fastq-solexa - Original Solexa/Illumnia variant of the FASTQ format which
149
150
             encodes Solexa quality scores (not PHRED quality scores) with an
150
151
             ASCII offset of 64.
262
263
                    "tab" : TabIO.TabIterator,
263
264
                    "pir" : PirIO.PirIterator,
264
265
                    "fastq" : QualityIO.FastqPhredIterator,
 
266
                    "fastq-sanger" : QualityIO.FastqPhredIterator,
265
267
                    "fastq-solexa" : QualityIO.FastqSolexaIterator,
266
268
                    "fastq-illumina" : QualityIO.FastqIlluminaIterator,
267
269
                    "qual" : QualityIO.QualPhredIterator,
272
274
                  "genbank" : InsdcIO.GenBankWriter,
273
275
                  "tab" : TabIO.TabWriter,
274
276
                  "fastq" : QualityIO.FastqPhredWriter,
 
277
                  "fastq-sanger" : QualityIO.FastqPhredWriter,
275
278
                  "fastq-solexa" : QualityIO.FastqSolexaWriter,
276
279
                  "fastq-illumina" : QualityIO.FastqIlluminaWriter,
277
280
                  "qual" : QualityIO.QualPhredWriter,