View | Details | Raw Unified | Return to bug 148274
Collapse All | Expand All

(-)py-biopython/Makefile (-3 / +2 lines)
Lines 6-12 Link Here
6
#
6
#
7
7
8
PORTNAME=	biopython
8
PORTNAME=	biopython
9
PORTVERSION=	1.53
9
PORTVERSION=	1.54
10
CATEGORIES=	biology python
10
CATEGORIES=	biology python
11
MASTER_SITES=	http://www.biopython.org/DIST/
11
MASTER_SITES=	http://www.biopython.org/DIST/
12
PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
12
PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
Lines 14-21 Link Here
14
MAINTAINER=	mauricio@arareko.net
14
MAINTAINER=	mauricio@arareko.net
15
COMMENT=	A collection of Python modules for bioinformatics
15
COMMENT=	A collection of Python modules for bioinformatics
16
16
17
BUILD_DEPENDS=	${PYNUMPY} \
17
BUILD_DEPENDS=	${PYNUMPY}
18
		${PYTHON_SITELIBDIR}/mx/TextTools/__init__.py:${PORTSDIR}/lang/py-mx-base
19
RUN_DEPENDS=	${BUILD_DEPENDS}
18
RUN_DEPENDS=	${BUILD_DEPENDS}
20
19
21
USE_PYTHON=	2.4+
20
USE_PYTHON=	2.4+
(-)py-biopython/distinfo (-3 / +3 lines)
Lines 1-3 Link Here
1
MD5 (biopython-1.53.tar.gz) = df1004ec64b9b593c0e690c14a20667a
1
MD5 (biopython-1.54.tar.gz) = d4c4ce5a3e1bb401928ca3dc3d1b08cd
2
SHA256 (biopython-1.53.tar.gz) = 0db8bf8d37641fdfc6a8aac248de3d8cb4111e55484deb43f67e8d7ad082013f
2
SHA256 (biopython-1.54.tar.gz) = 6f704698d68af75b3601b2a862386682b2317038b8bbaf2eb2ad68c1e1a4dc35
3
SIZE (biopython-1.53.tar.gz) = 4284683
3
SIZE (biopython-1.54.tar.gz) = 6445527
(-)py-biopython/pkg-plist (-43 / +141 lines)
Lines 1-19 Link Here
1
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeq.py
2
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeq.pyc
3
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeq.pyo
4
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeqDatabase.py
5
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeqDatabase.pyc
6
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeqDatabase.pyo
7
%%PYTHON_SITELIBDIR%%/BioSQL/DBUtils.py
8
%%PYTHON_SITELIBDIR%%/BioSQL/DBUtils.pyc
9
%%PYTHON_SITELIBDIR%%/BioSQL/DBUtils.pyo
10
%%PYTHON_SITELIBDIR%%/BioSQL/Loader.py
11
%%PYTHON_SITELIBDIR%%/BioSQL/Loader.pyc
12
%%PYTHON_SITELIBDIR%%/BioSQL/Loader.pyo
13
%%PYTHON_SITELIBDIR%%/BioSQL/__init__.py
14
%%PYTHON_SITELIBDIR%%/BioSQL/__init__.pyc
15
%%PYTHON_SITELIBDIR%%/BioSQL/__init__.pyo
16
@dirrm %%PYTHON_SITELIBDIR%%/BioSQL
17
%%PYTHON_SITELIBDIR%%/Bio/Affy/CelFile.py
1
%%PYTHON_SITELIBDIR%%/Bio/Affy/CelFile.py
18
%%PYTHON_SITELIBDIR%%/Bio/Affy/CelFile.pyc
2
%%PYTHON_SITELIBDIR%%/Bio/Affy/CelFile.pyc
19
%%PYTHON_SITELIBDIR%%/Bio/Affy/CelFile.pyo
3
%%PYTHON_SITELIBDIR%%/Bio/Affy/CelFile.pyo
Lines 189-194 Link Here
189
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/HomoloGene.mod.dtd
173
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/HomoloGene.mod.dtd
190
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd
174
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd
191
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd
175
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd
176
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_BlastOutput.dtd
177
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_BlastOutput.mod.dtd
192
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Entity.mod.dtd
178
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Entity.mod.dtd
193
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Entrezgene.dtd
179
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Entrezgene.dtd
194
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd
180
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd
Lines 219-247 Link Here
219
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/PIR_General.mod.dtd
205
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/PIR_General.mod.dtd
220
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/PRF_General.mod.dtd
206
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/PRF_General.mod.dtd
221
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/SP_General.mod.dtd
207
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/SP_General.mod.dtd
208
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/XHTMLtablesetup.ent
209
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/archivearticle.dtd
210
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/archivecustom-classes.ent
211
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/archivecustom-mixes.ent
212
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/archivecustom-models.ent
213
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/archivecustom-modules.ent
214
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/articlemeta.ent
215
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/backmatter.ent
216
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/chars.ent
217
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/common.ent
218
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/default-classes.ent
219
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/default-mixes.ent
220
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/display.ent
222
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eInfo_020511.dtd
221
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eInfo_020511.dtd
223
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eLink_020511.dtd
222
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eLink_020511.dtd
223
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eLink_090910.dtd
224
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/ePost_020511.dtd
224
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/ePost_020511.dtd
225
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eSearch_020511.dtd
225
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eSearch_020511.dtd
226
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eSpell.dtd
226
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eSpell.dtd
227
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eSummary_041029.dtd
227
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/eSummary_041029.dtd
228
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/egquery.dtd
228
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/egquery.dtd
229
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pmc-1.dtd
229
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/elink_020122.dtd
230
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_100101.dtd
230
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/format.ent
231
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/htmltable.dtd
232
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isoamsa.ent
233
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isoamsb.ent
234
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isoamsc.ent
235
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isoamsn.ent
236
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isoamso.ent
237
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isoamsr.ent
238
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isobox.ent
239
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isocyr1.ent
240
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isocyr2.ent
241
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isodia.ent
242
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isogrk1.ent
243
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isogrk2.ent
244
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isogrk3.ent
245
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isogrk4.ent
246
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isolat1.ent
247
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isolat2.ent
248
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isomfrk.ent
249
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isomopf.ent
250
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isomscr.ent
251
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isonum.ent
252
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isopub.ent
253
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/isotech.ent
254
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/journalmeta.ent
255
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/link.ent
256
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/list.ent
257
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/math.ent
258
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/mathml2-qname-1.mod
259
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/mathml2.dtd
260
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/mathmlsetup.ent
261
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/mmlalias.ent
262
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/mmlextra.ent
263
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/modules.ent
231
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlm-articleset-2.0.dtd
264
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlm-articleset-2.0.dtd
265
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmcommon_011101.dtd
232
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmcommon_080101.dtd
266
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmcommon_080101.dtd
233
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmcommon_090101.dtd
267
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmcommon_090101.dtd
268
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedline_011101.dtd
234
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedline_080101.dtd
269
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedline_080101.dtd
235
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedline_090101.dtd
270
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedline_090101.dtd
236
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd
271
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitation_011101.dtd
237
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd
272
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd
238
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd
273
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd
274
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd
239
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmserials_080101.dtd
275
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmserials_080101.dtd
240
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd
276
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd
241
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd
277
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd
278
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/notat.ent
279
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/para.ent
280
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/phrase.ent
281
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pmc-1.dtd
282
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_020114.dtd
242
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_080101.dtd
283
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_080101.dtd
243
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_090101.dtd
284
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_090101.dtd
285
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/pubmed_100101.dtd
286
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/references.ent
287
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/section.ent
244
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/taxon.dtd
288
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/taxon.dtd
289
%%PYTHON_SITELIBDIR%%/Bio/Entrez/DTDs/xmlspecchars.ent
245
%%PYTHON_SITELIBDIR%%/Bio/Entrez/Parser.py
290
%%PYTHON_SITELIBDIR%%/Bio/Entrez/Parser.py
246
%%PYTHON_SITELIBDIR%%/Bio/Entrez/Parser.pyc
291
%%PYTHON_SITELIBDIR%%/Bio/Entrez/Parser.pyc
247
%%PYTHON_SITELIBDIR%%/Bio/Entrez/Parser.pyo
292
%%PYTHON_SITELIBDIR%%/Bio/Entrez/Parser.pyo
Lines 498-509 Link Here
498
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/AlignAce.py
543
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/AlignAce.py
499
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/AlignAce.pyc
544
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/AlignAce.pyc
500
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/AlignAce.pyo
545
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/AlignAce.pyo
501
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MEME.py
502
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MEME.pyc
503
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MEME.pyo
504
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MAST.py
546
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MAST.py
505
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MAST.pyc
547
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MAST.pyc
506
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MAST.pyo
548
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MAST.pyo
549
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MEME.py
550
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MEME.pyc
551
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/MEME.pyo
507
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/__init__.py
552
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/__init__.py
508
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/__init__.pyc
553
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/__init__.pyc
509
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/__init__.pyo
554
%%PYTHON_SITELIBDIR%%/Bio/Motif/Parsers/__init__.pyo
Lines 692-697 Link Here
692
%%PYTHON_SITELIBDIR%%/Bio/Pathway/__init__.py
737
%%PYTHON_SITELIBDIR%%/Bio/Pathway/__init__.py
693
%%PYTHON_SITELIBDIR%%/Bio/Pathway/__init__.pyc
738
%%PYTHON_SITELIBDIR%%/Bio/Pathway/__init__.pyc
694
%%PYTHON_SITELIBDIR%%/Bio/Pathway/__init__.pyo
739
%%PYTHON_SITELIBDIR%%/Bio/Pathway/__init__.pyo
740
%%PYTHON_SITELIBDIR%%/Bio/Phylo/BaseTree.py
741
%%PYTHON_SITELIBDIR%%/Bio/Phylo/BaseTree.pyc
742
%%PYTHON_SITELIBDIR%%/Bio/Phylo/BaseTree.pyo
743
%%PYTHON_SITELIBDIR%%/Bio/Phylo/Newick.py
744
%%PYTHON_SITELIBDIR%%/Bio/Phylo/Newick.pyc
745
%%PYTHON_SITELIBDIR%%/Bio/Phylo/Newick.pyo
746
%%PYTHON_SITELIBDIR%%/Bio/Phylo/NewickIO.py
747
%%PYTHON_SITELIBDIR%%/Bio/Phylo/NewickIO.pyc
748
%%PYTHON_SITELIBDIR%%/Bio/Phylo/NewickIO.pyo
749
%%PYTHON_SITELIBDIR%%/Bio/Phylo/NexusIO.py
750
%%PYTHON_SITELIBDIR%%/Bio/Phylo/NexusIO.pyc
751
%%PYTHON_SITELIBDIR%%/Bio/Phylo/NexusIO.pyo
752
%%PYTHON_SITELIBDIR%%/Bio/Phylo/PhyloXML.py
753
%%PYTHON_SITELIBDIR%%/Bio/Phylo/PhyloXML.pyc
754
%%PYTHON_SITELIBDIR%%/Bio/Phylo/PhyloXML.pyo
755
%%PYTHON_SITELIBDIR%%/Bio/Phylo/PhyloXMLIO.py
756
%%PYTHON_SITELIBDIR%%/Bio/Phylo/PhyloXMLIO.pyc
757
%%PYTHON_SITELIBDIR%%/Bio/Phylo/PhyloXMLIO.pyo
758
%%PYTHON_SITELIBDIR%%/Bio/Phylo/__init__.py
759
%%PYTHON_SITELIBDIR%%/Bio/Phylo/__init__.pyc
760
%%PYTHON_SITELIBDIR%%/Bio/Phylo/__init__.pyo
761
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_io.py
762
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_io.pyc
763
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_io.pyo
764
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_sugar.py
765
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_sugar.pyc
766
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_sugar.pyo
767
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_utils.py
768
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_utils.pyc
769
%%PYTHON_SITELIBDIR%%/Bio/Phylo/_utils.pyo
695
%%PYTHON_SITELIBDIR%%/Bio/PopGen/Async/Local.py
770
%%PYTHON_SITELIBDIR%%/Bio/PopGen/Async/Local.py
696
%%PYTHON_SITELIBDIR%%/Bio/PopGen/Async/Local.pyc
771
%%PYTHON_SITELIBDIR%%/Bio/PopGen/Async/Local.pyc
697
%%PYTHON_SITELIBDIR%%/Bio/PopGen/Async/Local.pyo
772
%%PYTHON_SITELIBDIR%%/Bio/PopGen/Async/Local.pyo
Lines 710-724 Link Here
710
%%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist/__init__.py
785
%%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist/__init__.py
711
%%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist/__init__.pyc
786
%%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist/__init__.pyc
712
%%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist/__init__.pyo
787
%%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist/__init__.pyo
713
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Utils.py
714
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Utils.pyc
715
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Utils.pyo
716
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Controller.py
788
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Controller.py
717
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Controller.pyc
789
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Controller.pyc
718
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Controller.pyo
790
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Controller.pyo
719
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/EasyController.py
791
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/EasyController.py
720
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/EasyController.pyc
792
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/EasyController.pyc
721
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/EasyController.pyo
793
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/EasyController.pyo
794
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/FileParser.py
795
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/FileParser.pyc
796
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/FileParser.pyo
797
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Utils.py
798
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Utils.pyc
799
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/Utils.pyo
722
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/__init__.py
800
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/__init__.py
723
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/__init__.pyc
801
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/__init__.pyc
724
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/__init__.pyo
802
%%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop/__init__.pyo
Lines 789-797 Link Here
789
%%PYTHON_SITELIBDIR%%/Bio/Restriction/__init__.py
867
%%PYTHON_SITELIBDIR%%/Bio/Restriction/__init__.py
790
%%PYTHON_SITELIBDIR%%/Bio/Restriction/__init__.pyc
868
%%PYTHON_SITELIBDIR%%/Bio/Restriction/__init__.pyc
791
%%PYTHON_SITELIBDIR%%/Bio/Restriction/__init__.pyo
869
%%PYTHON_SITELIBDIR%%/Bio/Restriction/__init__.pyo
792
%%PYTHON_SITELIBDIR%%/Bio/SCOP/__init__.py
793
%%PYTHON_SITELIBDIR%%/Bio/SCOP/__init__.pyc
794
%%PYTHON_SITELIBDIR%%/Bio/SCOP/__init__.pyo
795
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Cla.py
870
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Cla.py
796
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Cla.pyc
871
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Cla.pyc
797
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Cla.pyo
872
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Cla.pyo
Lines 810-815 Link Here
810
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Residues.py
885
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Residues.py
811
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Residues.pyc
886
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Residues.pyc
812
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Residues.pyo
887
%%PYTHON_SITELIBDIR%%/Bio/SCOP/Residues.pyo
888
%%PYTHON_SITELIBDIR%%/Bio/SCOP/__init__.py
889
%%PYTHON_SITELIBDIR%%/Bio/SCOP/__init__.pyc
890
%%PYTHON_SITELIBDIR%%/Bio/SCOP/__init__.pyo
813
%%PYTHON_SITELIBDIR%%/Bio/SVDSuperimposer/SVDSuperimposer.py
891
%%PYTHON_SITELIBDIR%%/Bio/SVDSuperimposer/SVDSuperimposer.py
814
%%PYTHON_SITELIBDIR%%/Bio/SVDSuperimposer/SVDSuperimposer.pyc
892
%%PYTHON_SITELIBDIR%%/Bio/SVDSuperimposer/SVDSuperimposer.pyc
815
%%PYTHON_SITELIBDIR%%/Bio/SVDSuperimposer/SVDSuperimposer.pyo
893
%%PYTHON_SITELIBDIR%%/Bio/SVDSuperimposer/SVDSuperimposer.pyo
Lines 825-836 Link Here
825
%%PYTHON_SITELIBDIR%%/Bio/SeqFeature.py
903
%%PYTHON_SITELIBDIR%%/Bio/SeqFeature.py
826
%%PYTHON_SITELIBDIR%%/Bio/SeqFeature.pyc
904
%%PYTHON_SITELIBDIR%%/Bio/SeqFeature.pyc
827
%%PYTHON_SITELIBDIR%%/Bio/SeqFeature.pyo
905
%%PYTHON_SITELIBDIR%%/Bio/SeqFeature.pyo
828
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_convert.py
829
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_convert.pyc
830
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_convert.pyo
831
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_index.py
832
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_index.pyc
833
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_index.pyo
834
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/AceIO.py
906
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/AceIO.py
835
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/AceIO.pyc
907
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/AceIO.pyc
836
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/AceIO.pyo
908
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/AceIO.pyo
Lines 855-860 Link Here
855
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/QualityIO.py
927
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/QualityIO.py
856
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/QualityIO.pyc
928
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/QualityIO.pyc
857
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/QualityIO.pyo
929
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/QualityIO.pyo
930
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SffIO.py
931
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SffIO.pyc
932
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SffIO.pyo
858
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SwissIO.py
933
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SwissIO.py
859
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SwissIO.pyc
934
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SwissIO.pyc
860
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SwissIO.pyo
935
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/SwissIO.pyo
Lines 864-869 Link Here
864
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/__init__.py
939
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/__init__.py
865
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/__init__.pyc
940
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/__init__.pyc
866
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/__init__.pyo
941
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/__init__.pyo
942
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_convert.py
943
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_convert.pyc
944
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_convert.pyo
945
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_index.py
946
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_index.pyc
947
%%PYTHON_SITELIBDIR%%/Bio/SeqIO/_index.pyo
867
%%PYTHON_SITELIBDIR%%/Bio/SeqRecord.py
948
%%PYTHON_SITELIBDIR%%/Bio/SeqRecord.py
868
%%PYTHON_SITELIBDIR%%/Bio/SeqRecord.pyc
949
%%PYTHON_SITELIBDIR%%/Bio/SeqRecord.pyc
869
%%PYTHON_SITELIBDIR%%/Bio/SeqRecord.pyo
950
%%PYTHON_SITELIBDIR%%/Bio/SeqRecord.pyo
Lines 897-911 Link Here
897
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Ace.py
978
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Ace.py
898
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Ace.pyc
979
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Ace.pyc
899
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Ace.pyo
980
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Ace.pyo
900
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Phd.py
901
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Phd.pyc
902
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Phd.pyo
903
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/__init__.py
904
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/__init__.pyc
905
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/__init__.pyo
906
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/_Novoalign.py
981
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/_Novoalign.py
907
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/_Novoalign.pyc
982
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/_Novoalign.pyc
908
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/_Novoalign.pyo
983
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/_Novoalign.pyo
984
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/__init__.py
985
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/__init__.pyc
986
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Applications/__init__.pyo
987
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Phd.py
988
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Phd.pyc
989
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/Phd.pyo
909
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/__init__.py
990
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/__init__.py
910
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/__init__.pyc
991
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/__init__.pyc
911
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/__init__.pyo
992
%%PYTHON_SITELIBDIR%%/Bio/Sequencing/__init__.pyo
Lines 939-950 Link Here
939
%%PYTHON_SITELIBDIR%%/Bio/Translate.py
1020
%%PYTHON_SITELIBDIR%%/Bio/Translate.py
940
%%PYTHON_SITELIBDIR%%/Bio/Translate.pyc
1021
%%PYTHON_SITELIBDIR%%/Bio/Translate.pyc
941
%%PYTHON_SITELIBDIR%%/Bio/Translate.pyo
1022
%%PYTHON_SITELIBDIR%%/Bio/Translate.pyo
942
%%PYTHON_SITELIBDIR%%/Bio/UniGene/__init__.py
943
%%PYTHON_SITELIBDIR%%/Bio/UniGene/__init__.pyc
944
%%PYTHON_SITELIBDIR%%/Bio/UniGene/__init__.pyo
945
%%PYTHON_SITELIBDIR%%/Bio/UniGene/UniGene.py
1023
%%PYTHON_SITELIBDIR%%/Bio/UniGene/UniGene.py
946
%%PYTHON_SITELIBDIR%%/Bio/UniGene/UniGene.pyc
1024
%%PYTHON_SITELIBDIR%%/Bio/UniGene/UniGene.pyc
947
%%PYTHON_SITELIBDIR%%/Bio/UniGene/UniGene.pyo
1025
%%PYTHON_SITELIBDIR%%/Bio/UniGene/UniGene.pyo
1026
%%PYTHON_SITELIBDIR%%/Bio/UniGene/__init__.py
1027
%%PYTHON_SITELIBDIR%%/Bio/UniGene/__init__.pyc
1028
%%PYTHON_SITELIBDIR%%/Bio/UniGene/__init__.pyo
948
%%PYTHON_SITELIBDIR%%/Bio/Wise/__init__.py
1029
%%PYTHON_SITELIBDIR%%/Bio/Wise/__init__.py
949
%%PYTHON_SITELIBDIR%%/Bio/Wise/__init__.pyc
1030
%%PYTHON_SITELIBDIR%%/Bio/Wise/__init__.pyc
950
%%PYTHON_SITELIBDIR%%/Bio/Wise/__init__.pyo
1031
%%PYTHON_SITELIBDIR%%/Bio/Wise/__init__.pyo
Lines 981-986 Link Here
981
%%PYTHON_SITELIBDIR%%/Bio/utils.py
1062
%%PYTHON_SITELIBDIR%%/Bio/utils.py
982
%%PYTHON_SITELIBDIR%%/Bio/utils.pyc
1063
%%PYTHON_SITELIBDIR%%/Bio/utils.pyc
983
%%PYTHON_SITELIBDIR%%/Bio/utils.pyo
1064
%%PYTHON_SITELIBDIR%%/Bio/utils.pyo
1065
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeq.py
1066
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeq.pyc
1067
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeq.pyo
1068
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeqDatabase.py
1069
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeqDatabase.pyc
1070
%%PYTHON_SITELIBDIR%%/BioSQL/BioSeqDatabase.pyo
1071
%%PYTHON_SITELIBDIR%%/BioSQL/DBUtils.py
1072
%%PYTHON_SITELIBDIR%%/BioSQL/DBUtils.pyc
1073
%%PYTHON_SITELIBDIR%%/BioSQL/DBUtils.pyo
1074
%%PYTHON_SITELIBDIR%%/BioSQL/Loader.py
1075
%%PYTHON_SITELIBDIR%%/BioSQL/Loader.pyc
1076
%%PYTHON_SITELIBDIR%%/BioSQL/Loader.pyo
1077
%%PYTHON_SITELIBDIR%%/BioSQL/__init__.py
1078
%%PYTHON_SITELIBDIR%%/BioSQL/__init__.pyc
1079
%%PYTHON_SITELIBDIR%%/BioSQL/__init__.pyo
984
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Affy
1080
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Affy
985
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Align/Applications
1081
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Align/Applications
986
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Align
1082
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Align
Lines 1035-1040 Link Here
1035
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Parsers
1131
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Parsers
1036
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Pathway/Rep
1132
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Pathway/Rep
1037
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Pathway
1133
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Pathway
1134
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Phylo
1038
@dirrm %%PYTHON_SITELIBDIR%%/Bio/PopGen/Async
1135
@dirrm %%PYTHON_SITELIBDIR%%/Bio/PopGen/Async
1039
@dirrm %%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist
1136
@dirrm %%PYTHON_SITELIBDIR%%/Bio/PopGen/FDist
1040
@dirrm %%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop
1137
@dirrm %%PYTHON_SITELIBDIR%%/Bio/PopGen/GenePop
Lines 1056-1058 Link Here
1056
@dirrm %%PYTHON_SITELIBDIR%%/Bio/UniGene
1153
@dirrm %%PYTHON_SITELIBDIR%%/Bio/UniGene
1057
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Wise
1154
@dirrm %%PYTHON_SITELIBDIR%%/Bio/Wise
1058
@dirrm %%PYTHON_SITELIBDIR%%/Bio
1155
@dirrm %%PYTHON_SITELIBDIR%%/Bio
1156
@dirrm %%PYTHON_SITELIBDIR%%/BioSQL

Return to bug 148274