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Faheem Mitha  committed a29b9a7

Update paper

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  • Parent commits 0a2a30a

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 +    f = open(outfile, 'w')
 +    f.write(str(seqcontainsrss))
 +    f.close()
+diff -r 93dca9262560 comparedatafilesinfo.py
+--- /dev/null
++++ b/comparedatafilesinfo.py
+@@ -0,0 +1,22 @@
++datafilesinfoorig = [['AF018146', 'forward'], ['AF018146', 'reverse'], ['X58411', 'reverse'], ['X58414', 'reverse'], ['AE000665', 'forward'], ['AE000665', 'reverse'], ['M38103', 'reverse'], ['M64239', 'reverse'], ['M38105', 'reverse'], ['X03761', 'reverse'], ['X03057', 'reverse'], ['X17177', 'reverse'], ['X02858', 'reverse'], ['X02862', 'reverse'], ['X03056', 'reverse'], ['X02843', 'reverse'], ['X03058', 'reverse'], ['X02859', 'reverse'], ['X03059', 'reverse'], ['D00080', 'forward'], ['D00081', 'forward'], ['D00082', 'forward'], ['M28132', 'forward'], ['M28134', 'forward'], ['Z72384', 'forward'], ['Z72382', 'forward'], ['J00562', 'forward'], ['K02418', 'forward'], ['K02159', 'forward'], ['K02160', 'forward'], ['K02158', 'forward'], ['K02161', 'forward'], ['K02162', 'forward'], ['X16954', 'forward'], ['X16955', 'forward'], ['Y15968', 'forward'], ['Y15972', 'forward'], ['V01565', 'forward'], ['K00884', 'forward'], ['V01564', 'forward'], ['M14360', 'forward'], ['Y15975', 'forward'], ['Y15976', 'forward'], ['Y15978', 'forward'], ['Y15981', 'forward'], ['AF044198', 'forward'], ['Y15977', 'forward'], ['Y15980', 'forward'], ['Y15982', 'forward'], ['M15520', 'forward'], ['M54906', 'forward'], ['AF029261', 'forward'], ['J00545', 'forward'], ['V01563', 'forward'], ['AJ235963', 'forward'], ['AJ235953', 'forward'], ['AJ235940', 'forward'], ['AJ231200', 'forward'], ['AJ231206', 'forward'], ['AJ231207', 'forward'], ['AJ132683', 'forward'], ['AJ231263', 'forward'], ['AJ235938', 'forward'], ['AJ239198', 'forward'], ['AJ231231', 'forward'], ['AJ231223', 'forward'], ['AJ231225', 'forward'], ['AJ231221', 'forward'], ['AJ231234', 'forward'], ['AJ231209', 'forward'], ['AJ231248', 'forward'], ['AJ231250', 'forward'], ['AJ231273', 'forward'], ['AJ231222', 'forward'], ['AJ235942', 'forward'], ['AJ235943', 'forward'], ['AJ231218', 'forward'], ['AJ231219', 'forward'], ['AJ231216', 'forward'], ['AJ231217', 'forward'], ['AJ231212', 'forward'], ['AJ231213', 'forward'], ['AJ231214', 'forward'], ['AJ231215', 'forward'], ['AJ231224', 'forward'], ['AJ231226', 'forward'], ['AJ231229', 'forward'], ['AJ235944', 'forward'], ['AJ235946', 'forward'], ['AJ235947', 'forward'], ['AJ235948', 'forward'], ['AJ235958', 'forward'], ['AJ231241', 'forward'], ['AJ239197', 'forward'], ['AJ231244', 'forward'], ['AJ231247', 'forward'], ['AJ231256', 'forward'], ['AJ235949', 'forward'], ['AJ235950', 'forward'], ['AJ235951', 'forward'], ['AJ235956', 'forward'], ['AJ235961', 'forward'], ['AJ235962', 'forward'], ['AJ235967', 'forward'], ['AJ235968', 'forward'], ['AJ235966', 'forward'], ['AJ231258', 'forward'], ['AJ231259', 'forward'], ['AJ235964', 'forward'], ['AJ235973', 'forward'], ['AJ235974', 'forward'], ['AJ231264', 'forward'], ['AJ231269', 'forward'], ['AJ231274', 'forward'], ['AJ235935', 'forward'], ['AJ235936', 'forward'], ['AJ231243', 'forward'], ['J00434', 'reverse'], ['M35332', 'reverse'], ['J00436', 'reverse'], ['M60961', 'reverse'], ['M60955', 'reverse'], ['J00431', 'reverse'], ['J00435', 'reverse'], ['J00437', 'reverse'], ['J00432', 'reverse'], ['J00433', 'reverse'], ['J00438', 'reverse'], ['J00439', 'reverse'], ['D13199', 'reverse'], ['M23243', 'reverse'], ['L32868', 'reverse'], ['J00440', 'reverse'], ['J00434', 'forward'], ['M35332', 'forward'], ['J00436', 'forward'], ['J00431', 'forward'], ['J00435', 'forward'], ['J00437', 'forward'], ['J00432', 'forward'], ['J00433', 'forward'], ['J00438', 'forward'], ['J00439', 'forward'], ['D13199', 'forward'], ['L32868', 'forward'], ['J00440', 'forward']]
++
++#datafilesinfoorig.sort()
++#print datafilesinfoorig
++
++datafilesinfonew = [['Z72384', 'forward'], ['AJ132683', 'forward'], ['Y15968', 'forward'], ['K02159', 'forward'], ['K02158', 'forward'], ['AJ235974', 'forward'], ['AJ235973', 'forward'], ['M23243', 'reverse'], ['AF037352', 'reverse'], ['K00884', 'forward'], ['Y15975', 'forward'], ['AJ231269', 'forward'], ['K02802', 'reverse'], ['V00813', 'reverse'], ['AJ231264', 'forward'], ['AJ231263', 'forward'], ['J00562', 'forward'], ['Y15980', 'forward'], ['AJ235942', 'forward'], ['AJ235943', 'forward'], ['AJ235940', 'forward'], ['Y15978', 'forward'], ['AJ235946', 'forward'], ['AJ235947', 'forward'], ['AJ235944', 'forward'], ['Y15972', 'forward'], ['AJ235948', 'forward'], ['AJ235949', 'forward'], ['Y15977', 'forward'], ['Y15976', 'forward'], ['M54906', 'forward'], ['AJ231250', 'forward'], ['AJ231256', 'forward'], ['AJ231258', 'forward'], ['AJ231259', 'forward'], ['AJ231231', 'forward'], ['X17179', 'reverse'], ['AJ231234', 'forward'], ['J00593', 'reverse'], ['V01565', 'forward'], ['AJ235956', 'forward'], ['AJ235953', 'forward'], ['AF044198', 'forward'], ['J00440', 'forward'], ['J00440', 'reverse'], ['AJ235958', 'forward'], ['M64239', 'reverse'], ['M15520', 'forward'], ['AJ231244', 'forward'], ['AJ231247', 'forward'], ['AJ231241', 'forward'], ['AJ231243', 'forward'], ['Y15981', 'forward'], ['AJ231248', 'forward'], ['AJ231223', 'forward'], ['AJ231222', 'forward'], ['AJ231221', 'forward'], ['Z72382', 'forward'], ['AJ231226', 'forward'], ['AJ231225', 'forward'], ['AJ231224', 'forward'], ['AJ231229', 'forward'], ['AJ231228', 'forward'], ['J00583', 'reverse'], ['D00082', 'forward'], ['AJ239197', 'forward'], ['D00081', 'forward'], ['D13199', 'forward'], ['D13199', 'reverse'], ['X05502', 'reverse'], ['AJ239198', 'forward'], ['D00080', 'forward'], ['Y15982', 'forward'], ['X01018', 'reverse'], ['AJ231216', 'forward'], ['AJ231217', 'forward'], ['AJ231214', 'forward'], ['AJ231215', 'forward'], ['AJ231212', 'forward'], ['AJ231213', 'forward'], ['AJ231218', 'forward'], ['AJ231219', 'forward'], ['M60955', 'reverse'], ['L32868', 'forward'], ['L32868', 'reverse'], ['AJ235936', 'forward'], ['AJ235935', 'forward'], ['AJ235938', 'forward'], ['X02843', 'reverse'], ['J00431', 'forward'], ['J00431', 'reverse'], ['J00433', 'forward'], ['J00433', 'reverse'], ['J00432', 'forward'], ['J00432', 'reverse'], ['J00435', 'forward'], ['J00435', 'reverse'], ['J00434', 'forward'], ['J00434', 'reverse'], ['J00437', 'forward'], ['J00437', 'reverse'], ['J00436', 'forward'], ['J00436', 'reverse'], ['J00439', 'forward'], ['J00439', 'reverse'], ['J00438', 'forward'], ['J00438', 'reverse'], ['X00934', 'reverse'], ['K02162', 'forward'], ['M35332', 'forward'], ['M35332', 'reverse'], ['K02160', 'forward'], ['K02161', 'forward'], ['V01564', 'forward'], ['M28132', 'forward'], ['AJ235951', 'forward'], ['AJ235950', 'forward'], ['X16955', 'forward'], ['V01563', 'forward'], ['M28134', 'forward'], ['X00933', 'reverse'], ['M60961', 'reverse'], ['X16954', 'forward'], ['AJ231209', 'forward'], ['AF019412', 'reverse'], ['AJ231200', 'forward'], ['AJ231207', 'forward'], ['AJ231206', 'forward'], ['K02418', 'forward'], ['AJ235968', 'forward'], ['AE000665', 'reverse'], ['AJ235964', 'forward'], ['AJ235966', 'forward'], ['AJ235967', 'forward'], ['J00545', 'forward'], ['AJ235961', 'forward'], ['AJ235962', 'forward'], ['AJ235963', 'forward'], ['AF029261', 'forward'], ['AF021335', 'forward'], ['AF021335', 'reverse'], ['M14360', 'forward'], ['AJ231274', 'forward'], ['AJ231273', 'forward']]
++
++# [['AF037352', 'reverse'], ['K02802', 'reverse'], ['AF021335', 'forward'], ['J00583', 'reverse'], ['AF019412', 'reverse'], ['V00813', 'reverse'], ['J00593', 'reverse'], ['X05502', 'reverse'], ['X17179', 'reverse'], ['X00933', 'reverse'], ['X01018', 'reverse'], ['AJ231228', 'forward'], ['AF021335', 'reverse'], ['X00934', 'reverse']]
++
++datafilesinfoorig = [tuple(x) for x in datafilesinfoorig]
++
++datafilesinfonew = [tuple(x) for x in datafilesinfonew]
++
++datafilesinfo = list(set(datafilesinfoorig).union(set(datafilesinfonew)))
++datafilesinfo.sort()
++print datafilesinfo
++
++#print len(datafilesinfoorig)
++#print len(datafilesinfonew)
++#print len(set(datafilesinfoorig).intersection(set(datafilesinfonew)))
++#print set(datafilesinfoorig).difference(set(datafilesinfonew))
++#print [list(t) for t in list(set(datafilesinfonew).difference(set(datafilesinfoorig)))]
 diff -r 93dca9262560 compareseq.py
 --- /dev/null
 +++ b/compareseq.py