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2011-05-06	pschloss	more chimera.slayer stuff	commit \| commitdiff \| tree
2011-05-06	pschloss	working on search=dist in chimera.slayer	commit \| commitdiff \| tree
2011-05-06	pschloss	working on search=dist in chimera.slayer	commit \| commitdiff \| tree
2011-05-06	pschloss	chimera.slayer debugging	commit \| commitdiff \| tree
2011-05-05	pschloss	chimera.slayer debugging	commit \| commitdiff \| tree
2011-05-05	pschloss	chimera.slayer debugging	commit \| commitdiff \| tree
2011-05-05	pschloss	changed tags on temp blast db to include template name	commit \| commitdiff \| tree
2011-05-05	pschloss	changed tags on temp blast db to include template name	commit \| commitdiff \| tree
2011-05-03	pschloss	incorporation of nast-ier code / removed a cout	commit \| commitdiff \| tree
2011-05-03	pschloss	incorporation of nast-ier code	commit \| commitdiff \| tree
2011-04-27	pschloss	tracking down chimera.slayer issue	commit \| commitdiff \| tree
2011-04-21	pschloss	small things with chimera.slayer	commit \| commitdiff \| tree
2011-04-20	pschloss	some alterations to chimera.slayer	commit \| commitdiff \| tree
2011-04-18	pschloss	small fix to refchimeratest.cpp	commit \| commitdiff \| tree
2011-04-18	pschloss	tie breaker fix to chimera.slayer	commit \| commitdiff \| tree
2011-04-18	pschloss	tie breaker fix to chimera.slayer	commit \| commitdiff \| tree
2011-04-11	pschloss	pat's fixes to pca command	commit \| commitdiff \| tree
2011-04-08	pschloss	a few meaningless changes that are commented out	commit \| commitdiff \| tree
2011-03-30	pschloss	made dups=T default in get.seqs	commit \| commitdiff \| tree
2011-03-29	pschloss	removed some of the warning output from chimera.slayer	commit \| commitdiff \| tree
2011-03-23	pschloss	small mod to chimerarefseq.cpp	commit \| commitdiff \| tree
2011-03-21	pschloss	random chagnes from pat	commit \| commitdiff \| tree
2011-03-11	pschloss	some more mods to shh.seqs	commit \| commitdiff \| tree
2011-03-11	pschloss	some changes to trim.flows	commit \| commitdiff \| tree
2011-03-07	pschloss	removed some couts from qualityscores.cpp	commit \| commitdiff \| tree
2011-03-07	pschloss	fix trim.seqs / qualscores bug	commit \| commitdiff \| tree
2011-03-03	pschloss	fixed bug in seqerrorcommand	commit \| commitdiff \| tree
2011-03-03	pschloss	took out couts	commit \| commitdiff \| tree
2011-03-03	pschloss	modified reportfile class	commit \| commitdiff \| tree
2011-03-03	pschloss	modified seqerror and qualscores	commit \| commitdiff \| tree
2011-03-03	pschloss	modified seqerror and qualscores	commit \| commitdiff \| tree
2011-02-26	pschloss	some minor changes	commit \| commitdiff \| tree
2011-02-21	pschloss	reworked amova / homova / anosim	commit \| commitdiff \| tree
2011-02-18	pschloss	mods to amova command	commit \| commitdiff \| tree
2011-02-16	pschloss	bug fix to seq.error	commit \| commitdiff \| tree
2011-02-15	pschloss	fixed an mpi bug in shhh.seqs	commit \| commitdiff \| tree
2011-02-15	pschloss	took cout's from shhh.seqs	commit \| commitdiff \| tree
2011-02-15	pschloss	fixed bugg in shhh.seqs command	commit \| commitdiff \| tree
2011-02-15	pschloss	mods to shhh.seqs command	commit \| commitdiff \| tree
2011-02-15	pschloss	mods to seq.errror	commit \| commitdiff \| tree
2011-02-14	pschloss	* empty log message *	commit \| commitdiff \| tree
2011-02-11	pschloss	mod to seq.error to allow for degenerate bases in the...	commit \| commitdiff \| tree
2011-02-11	pschloss	shhh.seqs and trim.flows modifications.	commit \| commitdiff \| tree
2011-02-10	pschloss	modified reverse.seqs and qualscores.cpp	commit \| commitdiff \| tree
2011-02-09	pschloss	mods to trim.seqs	commit \| commitdiff \| tree
2011-02-09	pschloss	mods to trim.seqs	commit \| commitdiff \| tree
2011-02-09	pschloss	mods to shhhercommand and seqerrorcommand	commit \| commitdiff \| tree
2011-02-08	pschloss	changes to trim.flows command	commit \| commitdiff \| tree
2011-02-04	pschloss	removed trimera checking from refchimeratest	commit \| commitdiff \| tree
2011-02-03	pschloss	true chimera testing using reference sequences	commit \| commitdiff \| tree
2011-02-03	pschloss	* empty log message *	commit \| commitdiff \| tree
2011-01-04	pschloss	modifications to shhh.seqs	commit \| commitdiff \| tree
2010-12-31	pschloss	added shhh.seqs command	commit \| commitdiff \| tree
2010-12-31	pschloss	added shhh.seqs command	commit \| commitdiff \| tree
2010-12-23	pschloss	addition of trim.flows	commit \| commitdiff \| tree
2010-12-21	pschloss	more changes to error.seqs command and quality scores...	commit \| commitdiff \| tree
2010-12-20	pschloss	pat's changes to seq.error command	commit \| commitdiff \| tree
2010-12-07	pschloss	changes to seqerrorcommand	commit \| commitdiff \| tree
2010-08-26	pschloss	changes to read.tree	commit \| commitdiff \| tree
2010-08-26	pschloss	modified splitAtComma in mothurout command	commit \| commitdiff \| tree
2010-08-26	pschloss	changes to read.otu(list/shared) - took out substr...	commit \| commitdiff \| tree
2010-08-26	pschloss	took out debugging output code from distance calculators	commit \| commitdiff \| tree
2010-08-23	pschloss	added a few evenness calculators and fixed a couple...	commit \| commitdiff \| tree
2010-08-20	pschloss	fixed filterseqscommand bug where trump wasn't being...	commit \| commitdiff \| tree
2010-08-12	pschloss	fixed a trimming bug in sffinfo which occurs when the...	commit \| commitdiff \| tree
2010-08-12	pschloss	fixed int bug in simpson.cpp	commit \| commitdiff \| tree
2010-07-29	pschloss	another attempt to fix sffinfo	commit \| commitdiff \| tree
2010-07-29	pschloss	another pds fix to sffinfo	commit \| commitdiff \| tree
2010-07-29	pschloss	another pds fix to sffinfo	commit \| commitdiff \| tree
2010-07-29	pschloss	pds' small change to sffinfo	commit \| commitdiff \| tree
2010-07-28	pschloss	pat's slight modifications to trim.seqs	commit \| commitdiff \| tree
2010-07-19	pschloss	pat's updates on 7/19/10	commit \| commitdiff \| tree
2010-07-14	pschloss	pat's changes to trim.seqs	commit \| commitdiff \| tree
2010-07-07	pschloss	modified makefile and sensspeccommand files	commit \| commitdiff \| tree
2010-07-06	pschloss	sens.spec changes	commit \| commitdiff \| tree
2010-06-17	pschloss	made a small mod to the alignment parameters in trim...	commit \| commitdiff \| tree
2010-06-12	pschloss	pat's mod to trim.seqs	commit \| commitdiff \| tree
2010-06-09	pschloss	fixed bug in nast:removeextragaps	commit \| commitdiff \| tree
2010-06-09	pschloss	added weightedlinkage.cpp	commit \| commitdiff \| tree
2010-05-26	pschloss	fixed bugs with trim.seqs and bdiffs	commit \| commitdiff \| tree
2010-05-10	pschloss	pds - modified strip barcode funcrtion in trimseqscommand	commit \| commitdiff \| tree
2010-04-14	pschloss	pat's minor edits to distance calculations	commit \| commitdiff \| tree
2010-02-04	pschloss	test	commit \| commitdiff \| tree
2010-02-04	pschloss	pat's ../ bug fix - test	commit \| commitdiff \| tree
2010-02-04	pschloss	pat's ../ bug fix	commit \| commitdiff \| tree
2010-02-02	pschloss	pat's differences before v.1.8	commit \| commitdiff \| tree
2010-01-26	pschloss	pat's edits from 1/26/2010	commit \| commitdiff \| tree
2010-01-19	pschloss	pat's mods to morisitahorn and pre.cluster	commit \| commitdiff \| tree
2009-11-25	pschloss	version for 10.5	commit \| commitdiff \| tree
2009-11-24	pschloss	fixed splash page citation	commit \| commitdiff \| tree
2009-08-10	pschloss	mothur-v.1.5.0	commit \| commitdiff \| tree
2009-07-30	pschloss	pat's changes after generating wiki pages for 1.5	commit \| commitdiff \| tree
2009-07-30	pschloss	pat's edits prior to v.1.5	commit \| commitdiff \| tree
2009-06-23	pschloss	mothur v.1.4.1	commit \| commitdiff \| tree
2009-06-21	pschloss	This is v.1.4.0	commit \| commitdiff \| tree
2009-06-18	pschloss	added an alignreport option to screen seqs	commit \| commitdiff \| tree
2009-06-16	pschloss	a few minor things - pds	commit \| commitdiff \| tree
2009-06-14	pschloss	merged pat's trim seqs edits with sarah's major overhaul...	commit \| commitdiff \| tree
2009-06-08	pschloss	fixed how seq.dists divides the matrix for multiple...	commit \| commitdiff \| tree
2009-06-08	pschloss	added some features to trim.seqs	commit \| commitdiff \| tree
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