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2010-08-05	westcott	added summary, collect, and scale parameters to phylo...	commit \| commitdiff \| tree
2010-08-05	westcott	fixed bug with creation of .tree.sum file	commit \| commitdiff \| tree
2010-08-03	westcott	added countgaps parameter to chop.seqs command	commit \| commitdiff \| tree
2010-08-03	westcott	modified the engine to extract the path of mothur executable...	commit \| commitdiff \| tree
2010-08-02	westcott	fixed bug with phylo.diversity. not calculating as...	commit \| commitdiff \| tree
2010-07-30	westcott	changes for 1.12.2	commit \| commitdiff \| tree
2010-07-30	westcott	changes for 1.12.2	commit \| commitdiff \| tree
2010-07-29	westcott	1.12.1	commit \| commitdiff \| tree
2010-07-28	westcott	some bug fixes	commit \| commitdiff \| tree
2010-07-23	westcott	1.12.0	commit \| commitdiff \| tree
2010-07-22	westcott	fixes while testing 1.12.0	commit \| commitdiff \| tree
2010-07-20	westcott	added tempdefault to set.dir and fixed bug with padding...	commit \| commitdiff \| tree
2010-07-19	westcott	added ordergroup parameter to read.otu	commit \| commitdiff \| tree
2010-07-19	westcott	added compile time default path	commit \| commitdiff \| tree
2010-07-19	westcott	added fasta, qfile, trim, accnos and sfftxt parameter...	commit \| commitdiff \| tree
2010-07-15	westcott	sffinfo command is working	commit \| commitdiff \| tree
2010-07-15	westcott	sffinfo command is working	commit \| commitdiff \| tree
2010-07-15	westcott	working on sffinfo	commit \| commitdiff \| tree
2010-07-14	westcott	working on sffinfo command.	commit \| commitdiff \| tree
2010-07-14	westcott	working on sffinfo command.	commit \| commitdiff \| tree
2010-07-14	westcott	working on sffinfo command.	commit \| commitdiff \| tree
2010-07-14	westcott	started work on sffinfo command. fixed bug across...	commit \| commitdiff \| tree
2010-07-06	westcott	fixed trim.seqs bug	commit \| commitdiff \| tree
2010-07-06	westcott	rechecking in	commit \| commitdiff \| tree
2010-07-06	westcott	trim.seqs couts	commit \| commitdiff \| tree
2010-06-30	westcott	modified trim.seqs to split by primer name if primer...	commit \| commitdiff \| tree
2010-06-28	westcott	added groups option to get.oturep command	commit \| commitdiff \| tree
2010-06-24	westcott	created blank accnos in chimera commands if no seqs...	commit \| commitdiff \| tree
2010-06-23	westcott	fixed bug with cluster class. when we added the change...	commit \| commitdiff \| tree
2010-06-23	westcott	fixed cluster.split with average method	commit \| commitdiff \| tree
2010-06-22	westcott	finished get.relabund command	commit \| commitdiff \| tree
2010-06-22	westcott	finished get.relabund command	commit \| commitdiff \| tree
2010-06-22	westcott	added mpi code to cluster.split command	commit \| commitdiff \| tree
2010-06-22	westcott	added mpi code to cluster.split command	commit \| commitdiff \| tree
2010-06-21	westcott	added degap.seqs command	commit \| commitdiff \| tree
2010-06-21	westcott	modified chimera commands to process multiple fasta...	commit \| commitdiff \| tree
2010-06-18	westcott	removed blast files generated by chimera.slayer, altered...	commit \| commitdiff \| tree
2010-06-18	westcott	fixed problem with trim.seqs writing over files if...	commit \| commitdiff \| tree
2010-06-18	westcott	fixed problem with chimera.slayer realigner	commit \| commitdiff \| tree
2010-06-17	westcott	changes for 1.11	commit \| commitdiff \| tree
2010-06-17	westcott	changes while testing 1.11	commit \| commitdiff \| tree
2010-06-16	westcott	fixes while testing	commit \| commitdiff \| tree
2010-06-15	westcott	changed how we count sequences in a fastafile to allow...	commit \| commitdiff \| tree
2010-06-15	westcott	changed how we count sequences in a fastafile to allow...	commit \| commitdiff \| tree
2010-06-15	westcott	final commit before testing 1.11	commit \| commitdiff \| tree
2010-06-14	westcott	modified chop.seqs	commit \| commitdiff \| tree
2010-06-14	westcott	fixed read.tree so that it can read trees generated...	commit \| commitdiff \| tree
2010-06-14	westcott	added fasta method to cluster.split	commit \| commitdiff \| tree
2010-06-14	westcott	fixed bug in cluster.split	commit \| commitdiff \| tree
2010-06-14	westcott	fixed pintail bug	commit \| commitdiff \| tree
2010-06-11	westcott	fixed bug in cluster.split with classify method	commit \| commitdiff \| tree
2010-06-10	westcott	committing so I can work on the other machine	commit \| commitdiff \| tree
2010-06-09	westcott	changes to blastdb to make filenames given to blast...	commit \| commitdiff \| tree
2010-06-09	westcott	changes to blastdb to make filenames given to blast...	commit \| commitdiff \| tree
2010-06-04	westcott	sped up splitting of distance file by 2.5 times by...	commit \| commitdiff \| tree
2010-06-03	westcott	fixed cluster.split command	commit \| commitdiff \| tree
2010-06-02	westcott	added sort parameter to get.otulist	commit \| commitdiff \| tree
2010-06-02	westcott	added taxonomy file to list of files list.seqs, get...	commit \| commitdiff \| tree
2010-06-02	westcott	added classify.otu command	commit \| commitdiff \| tree
2010-06-02	westcott	added classify.otu command	commit \| commitdiff \| tree
2010-06-01	westcott	changed the daughterLevels in classifiers summary file...	commit \| commitdiff \| tree
2010-06-01	westcott	latest version	commit \| commitdiff \| tree
2010-05-28	westcott	finished cluster.split adding classify method.	commit \| commitdiff \| tree
2010-05-28	westcott	changed hard parameter in cluster commands	commit \| commitdiff \| tree
2010-05-27	westcott	fixed project	commit \| commitdiff \| tree
2010-05-27	westcott	changes to chop.seqs	commit \| commitdiff \| tree
2010-05-20	westcott	cluster.split command	commit \| commitdiff \| tree
2010-05-20	westcott	fixed phylip convert for cluster.split command	commit \| commitdiff \| tree
2010-05-20	westcott	added cluster.split command	commit \| commitdiff \| tree
2010-05-18	westcott	added split.abund comand	commit \| commitdiff \| tree
2010-05-17	westcott	change to phylo.diversity to make output = total branch...	commit \| commitdiff \| tree
2010-05-14	westcott	1.10.0	commit \| commitdiff \| tree
2010-05-12	westcott	modified freq parameter be a percentage of numSeqs...	commit \| commitdiff \| tree
2010-05-11	westcott	added clearcut command	commit \| commitdiff \| tree
2010-05-10	westcott	added chop.seqs command	commit \| commitdiff \| tree
2010-05-10	westcott	fixed problem with class.fy.seqs where group totals...	commit \| commitdiff \| tree
2010-05-10	westcott	added make.group command	commit \| commitdiff \| tree
2010-05-10	westcott	worked on trim.seqs	commit \| commitdiff \| tree
2010-05-10	westcott	worked on trim.seqs	commit \| commitdiff \| tree
2010-05-07	westcott	changed confidence scores calculation in bayesian	commit \| commitdiff \| tree
2010-05-07	westcott	modified trim.seqs to account for primers of different...	commit \| commitdiff \| tree
2010-05-07	westcott	added diffs to trim.seqs	commit \| commitdiff \| tree
2010-05-07	westcott	working on trim.seqs	commit \| commitdiff \| tree
2010-05-07	westcott	changed groupfile in classify.seqs to reflect multiple...	commit \| commitdiff \| tree
2010-05-05	westcott	filled out reference taxonomy with "unclassified" so...	commit \| commitdiff \| tree
2010-05-04	westcott	enabled ~	commit \| commitdiff \| tree
2010-05-04	westcott	fixed bug that caused bayesian cutoff not to work if...	commit \| commitdiff \| tree
2010-05-04	westcott	added phylo.diversity command. added hard parameter...	commit \| commitdiff \| tree
2010-04-30	westcott	made get.oturep more memory efficient by breaking the...	commit \| commitdiff \| tree
2010-04-30	westcott	paralellized trim.seqs	commit \| commitdiff \| tree
2010-04-29	westcott	paralellized summary.seqs and added mpi code to it.	commit \| commitdiff \| tree
2010-04-29	westcott	paralellized screen.seqs and added mpi code to it....	commit \| commitdiff \| tree
2010-04-28	westcott	added set.logfile command	commit \| commitdiff \| tree
2010-04-27	westcott	added name parameter to phylotype command	commit \| commitdiff \| tree
2010-04-27	westcott	reworked the classifiers summary file added groupfile...	commit \| commitdiff \| tree
2010-04-26	westcott	made classifier faster	commit \| commitdiff \| tree
2010-04-20	westcott	a few modifications for 1.9	commit \| commitdiff \| tree
2010-04-20	westcott	a few modifications for 1.9	commit \| commitdiff \| tree
2010-04-17	westcott	1.9	commit \| commitdiff \| tree
2010-04-16	westcott	1.9	commit \| commitdiff \| tree
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Mothur--16S microbiota sequencing software; mirror of main repository with my branches

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