git.donarmstrong.com Git - mothur.git/history

]> git.donarmstrong.com Git - mothur.git/history - commandfactory.cpp

2010-10-19	westcott	fixed bug with aligner and longest base. added deunique...	blob \| commitdiff \| raw \| diff to current
2010-10-15	westcott	added pipeline commands which involved change to comman...	blob \| commitdiff \| raw \| diff to current
2010-10-04	westcott	changed name of parse.fastaq command to fastq.info	blob \| commitdiff \| raw \| diff to current
2010-09-30	westcott	added parse.fastaq command, added permute option to...	blob \| commitdiff \| raw \| diff to current
2010-09-24	westcott	added get.lineage and remove.lineage commands	blob \| commitdiff \| raw \| diff to current
2010-09-23	westcott	added cluster.fragments command as well as the nseqs...	blob \| commitdiff \| raw \| diff to current
2010-09-21	westcott	added split.groups command	blob \| commitdiff \| raw \| diff to current
2010-09-17	westcott	working on megastats	blob \| commitdiff \| raw \| diff to current
2010-09-15	westcott	added normalize.shared command	blob \| commitdiff \| raw \| diff to current
2010-07-19	pschloss	pat's updates on 7/19/10	blob \| commitdiff \| raw \| diff to current
2010-07-14	westcott	started work on sffinfo command. fixed bug across...	blob \| commitdiff \| raw \| diff to current
2010-07-06	pschloss	sens.spec changes	blob \| commitdiff \| raw \| diff to current
2010-06-22	westcott	finished get.relabund command	blob \| commitdiff \| raw \| diff to current
2010-06-22	westcott	added mpi code to cluster.split command	blob \| commitdiff \| raw \| diff to current
2010-06-21	westcott	added degap.seqs command	blob \| commitdiff \| raw \| diff to current
2010-06-02	westcott	added classify.otu command	blob \| commitdiff \| raw \| diff to current
2010-05-27	westcott	fixed project	blob \| commitdiff \| raw \| diff to current
2010-05-27	westcott	changes to chop.seqs	blob \| commitdiff \| raw \| diff to current
2010-05-20	westcott	added cluster.split command	blob \| commitdiff \| raw \| diff to current
2010-05-18	westcott	added split.abund comand	blob \| commitdiff \| raw \| diff to current
2010-05-12	westcott	modified freq parameter be a percentage of numSeqs...	blob \| commitdiff \| raw \| diff to current
2010-05-11	westcott	added clearcut command	blob \| commitdiff \| raw \| diff to current
2010-05-10	westcott	added chop.seqs command	blob \| commitdiff \| raw \| diff to current
2010-05-10	westcott	added make.group command	blob \| commitdiff \| raw \| diff to current
2010-05-04	westcott	added phylo.diversity command. added hard parameter...	blob \| commitdiff \| raw \| diff to current
2010-04-29	westcott	paralellized summary.seqs and added mpi code to it.	blob \| commitdiff \| raw \| diff to current
2010-04-29	westcott	paralellized screen.seqs and added mpi code to it....	blob \| commitdiff \| raw \| diff to current
2010-04-28	westcott	added set.logfile command	blob \| commitdiff \| raw \| diff to current
2010-04-07	westcott	added MPI code, broke up chimera.seqs into 5 separated...	blob \| commitdiff \| raw \| diff to current
2010-03-12	westcott	added MPI to dist.seqs command	blob \| commitdiff \| raw \| diff to current
2010-03-11	westcott	testing mpi	blob \| commitdiff \| raw \| diff to current
2010-02-26	westcott	created mothurOut class to handle logfiles	blob \| commitdiff \| raw \| diff to current
2010-02-25	westcott	added parse.list command	blob \| commitdiff \| raw \| diff to current
2010-02-12	westcott	working on chimeras	blob \| commitdiff \| raw \| diff to current
2010-01-28	westcott	fixed some bugs found while testing 1.8	blob \| commitdiff \| raw \| diff to current
2010-01-27	westcott	fixed some bugs found while testing 1.8	blob \| commitdiff \| raw \| diff to current
2010-01-26	westcott	added set.dir command and modified commands to redirect...	blob \| commitdiff \| raw \| diff to current
2010-01-19	westcott	added out.hierarchy command	blob \| commitdiff \| raw \| diff to current
2010-01-04	westcott	added pca command	blob \| commitdiff \| raw \| diff to current
2009-12-23	westcott	precluster command finished	blob \| commitdiff \| raw \| diff to current
2009-12-21	westcott	fixed some bugs and added mgcluster command	blob \| commitdiff \| raw \| diff to current
2009-12-09	westcott	added sorted parameter to get.oturep, added error check...	blob \| commitdiff \| raw \| diff to current
2009-12-02	westcott	modified sequence class to read fasta files with commen...	blob \| commitdiff \| raw \| diff to current
2009-11-24	westcott	changed get.sharedotu to get.sharedseqs	blob \| commitdiff \| raw \| diff to current
2009-11-24	westcott	changed get.sharedotu to get.sharedseqs	blob \| commitdiff \| raw \| diff to current
2009-11-23	westcott	added phylotype command which reads a taxonomy file...	blob \| commitdiff \| raw \| diff to current
2009-11-05	westcott	started work on classify.seqs command. changed the...	blob \| commitdiff \| raw \| diff to current
2009-10-29	westcott	added hcluster command and fixed some bugs, namely...	blob \| commitdiff \| raw \| diff to current
2009-10-12	westcott	finished chimeraslayer method and added get.listcount...	blob \| commitdiff \| raw \| diff to current
2009-09-23	westcott	added get.sharedotu command	blob \| commitdiff \| raw \| diff to current
2009-09-21	westcott	align.check command added	blob \| commitdiff \| raw \| diff to current
2009-07-08	westcott	added system command	blob \| commitdiff \| raw \| diff to current
2009-07-08	westcott	added remove.seqs command	blob \| commitdiff \| raw \| diff to current
2009-07-08	westcott	added get.seqs command	blob \| commitdiff \| raw \| diff to current
2009-07-08	westcott	added list.seqs command	blob \| commitdiff \| raw \| diff to current
2009-06-29	westcott	fixed misspelling on consensus	blob \| commitdiff \| raw \| diff to current
2009-06-29	westcott	fixed bug in bootstrap command that was caused by globa...	blob \| commitdiff \| raw \| diff to current
2009-06-25	westcott	added logfile feature	blob \| commitdiff \| raw \| diff to current
2009-06-15	westcott	removed validcommands and put its checking in commandfa...	blob \| commitdiff \| raw \| diff to current
2009-06-14	pschloss	merged pat's trim seqs edits with sarah's major overhau...	blob \| commitdiff \| raw \| diff to current
2009-06-12	westcott	broke up globaldata and moved error checking and help...	blob \| commitdiff \| raw \| diff to current
2009-06-08	westcott	added heatmap.sim command and changed heatmap to heatma...	blob \| commitdiff \| raw \| diff to current
2009-06-06	pschloss	added trim.seqs command	blob \| commitdiff \| raw \| diff to current
2009-06-06	pschloss	added reverse.seqs command	blob \| commitdiff \| raw \| diff to current
2009-06-04	westcott	fixed some bugs	blob \| commitdiff \| raw \| diff to current
2009-06-03	pschloss	added screen.seqs command - pds	blob \| commitdiff \| raw \| diff to current
2009-06-03	westcott	added get.rabund and get.sabund command and fixed bug...	blob \| commitdiff \| raw \| diff to current
2009-06-03	pschloss	addition of summary.seq command [pds]	blob \| commitdiff \| raw \| diff to current
2009-05-21	westcott	modified bin.seqs and get.oturep commands to include...	blob \| commitdiff \| raw \| diff to current
2009-05-21	westcott	added dist.shared command	blob \| commitdiff \| raw \| diff to current
2009-05-20	westcott	added get.repseqs command, started matrix output command	blob \| commitdiff \| raw \| diff to current
2009-05-18	westcott	added alignment code	blob \| commitdiff \| raw \| diff to current
2009-05-14	westcott	fixed bug in venn command	blob \| commitdiff \| raw \| diff to current
2009-05-13	westcott	changed name of distance command to dist.seqs	blob \| commitdiff \| raw \| diff to current
2009-05-12	westcott	added distance command and filterseqs	blob \| commitdiff \| raw \| diff to current
2009-05-04	ryabin	* empty log message *	blob \| commitdiff \| raw \| diff to current
2009-05-04	westcott	added concensus command and updated calcs	blob \| commitdiff \| raw \| diff to current
2009-04-17	westcott	added bootstrap.shared command and fixed some bugs...	blob \| commitdiff \| raw \| diff to current
2009-04-14	westcott	started shared utilities, updates to venn and heatmap...	blob \| commitdiff \| raw \| diff to current
2009-04-06	westcott	added get.oturep command	blob \| commitdiff \| raw \| diff to current
2009-04-06	westcott	fixed memory leak in parsimony calculator and added...	blob \| commitdiff \| raw \| diff to current
2009-03-31	westcott	started venn command	blob \| commitdiff \| raw \| diff to current
2009-03-27	westcott	added heatmap command	blob \| commitdiff \| raw \| diff to current
2009-03-23	westcott	fixed libshuff signif. values	blob \| commitdiff \| raw \| diff to current
2009-03-23	westcott	put back no command and worked on libshuff	blob \| commitdiff \| raw \| diff to current
2009-03-20	westcott	removed no command because it is never called now that...	blob \| commitdiff \| raw \| diff to current
2009-03-18	westcott	working on libshuff	blob \| commitdiff \| raw \| diff to current
2009-03-09	westcott	deleted read.shared command and added its functionality...	blob \| commitdiff \| raw \| diff to current
2009-02-19	westcott	added mothur.h and fixed includes in many files	blob \| commitdiff \| raw \| diff to current
2009-02-18	ryabin	Added get.line command.	blob \| commitdiff \| raw \| diff to current
2009-02-13	westcott	added read.shared, broke up globaldata a bit	blob \| commitdiff \| raw \| diff to current
2009-02-11	westcott	adding treeclimber and unifrac pieces	blob \| commitdiff \| raw \| diff to current
2009-01-30	pschloss	When Pat tried to compile mothur in Ubuntu linux, there...	blob \| commitdiff \| raw \| diff to current
2009-01-29	westcott	rarefaction.shared() fixed bug	blob \| commitdiff \| raw \| diff to current
2009-01-26	westcott	fixed summary.shared bug and set jumble default to 1.	blob \| commitdiff \| raw \| diff to current
2009-01-22	westcott	finishing the container classes, combining read.otu...	blob \| commitdiff \| raw \| diff to current
2009-01-21	westcott	deconvolute command	blob \| commitdiff \| raw \| diff to current
2009-01-20	westcott	changed read.shared to read.list and incorporated the...	blob \| commitdiff \| raw \| diff to current
2009-01-16	westcott	Initial revision	blob \| commitdiff \| raw \| diff to current

Mothur--16S microbiota sequencing software; mirror of main repository with my branches

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