]> git.donarmstrong.com Git - mothur.git/commit
removed read.dist, read.otu, read.tree and globaldata. added current to defaults...
authorwestcott <westcott>
Wed, 6 Apr 2011 13:22:57 +0000 (13:22 +0000)
committerwestcott <westcott>
Wed, 6 Apr 2011 13:22:57 +0000 (13:22 +0000)
commitca9ac1d80c62f57270b0dcd49410ebe08a8aecd6
tree258756462120b992b315f0af8daaaa5d4be07eda
parent36a867cbd85d9c276d3c8d13f25a150bbbe2466b
removed read.dist, read.otu, read.tree and globaldata. added current to defaults for required parameters, changed virtual functions for the command class
287 files changed:
Mothur.xcodeproj/project.pbxproj
aligncommand.cpp
aligncommand.h
amovacommand.cpp
amovacommand.h
anosimcommand.cpp
anosimcommand.h
binsequencecommand.cpp
binsequencecommand.h
blastalign.cpp
blastalign.hpp
blastdb.cpp
blastdb.hpp
bootstrapsharedcommand.cpp
bootstrapsharedcommand.h
catchallcommand.cpp
catchallcommand.h
chimerabellerophoncommand.cpp
chimerabellerophoncommand.h
chimeraccodecommand.cpp
chimeraccodecommand.h
chimeracheckcommand.cpp
chimeracheckcommand.h
chimerapintailcommand.cpp
chimerapintailcommand.h
chimeraseqscommand.cpp [deleted file]
chimeraseqscommand.h [deleted file]
chimeraslayercommand.cpp
chimeraslayercommand.h
chopseqscommand.cpp
chopseqscommand.h
classifyotucommand.cpp
classifyotucommand.h
classifyseqscommand.cpp
classifyseqscommand.h
clearcutcommand.cpp
clearcutcommand.h
clusterclassic.cpp
clusterclassic.h
clustercommand.cpp
clustercommand.h
clusterdoturcommand.cpp
clusterdoturcommand.h
clusterfragmentscommand.cpp
clusterfragmentscommand.h
clustersplitcommand.cpp
clustersplitcommand.h
collect.cpp
collect.h
collectcommand.cpp
collectcommand.h
collectsharedcommand.cpp
collectsharedcommand.h
command.hpp
commandfactory.cpp
commandoptionparser.cpp
consensuscommand.cpp
consensuscommand.h
consensusseqscommand.cpp
consensusseqscommand.h
corraxescommand.cpp
corraxescommand.h
datavector.hpp
decalc.cpp
deconvolutecommand.cpp
deconvolutecommand.h
degapseqscommand.cpp
degapseqscommand.h
deuniqueseqscommand.cpp
deuniqueseqscommand.h
distancecommand.cpp
distancecommand.h
engine.cpp
engine.hpp
filterseqscommand.cpp
filterseqscommand.h
fullmatrix.cpp
fullmatrix.h
getcurrentcommand.cpp
getcurrentcommand.h
getgroupcommand.cpp
getgroupcommand.h
getgroupscommand.cpp
getgroupscommand.h
getlabelcommand.cpp
getlabelcommand.h
getlineagecommand.cpp
getlineagecommand.h
getlistcountcommand.cpp
getlistcountcommand.h
getoturepcommand.cpp
getoturepcommand.h
getotuscommand.cpp
getotuscommand.h
getrabundcommand.cpp
getrabundcommand.h
getrelabundcommand.cpp
getrelabundcommand.h
getsabundcommand.cpp
getsabundcommand.h
getseqscommand.cpp
getseqscommand.h
getsharedotucommand.cpp
getsharedotucommand.h
globaldata.cpp
globaldata.hpp
groupmap.cpp
hclustercommand.cpp
hclustercommand.h
heatmap.cpp
heatmap.h
heatmapcommand.cpp
heatmapcommand.h
heatmapsim.cpp
heatmapsim.h
heatmapsimcommand.cpp
heatmapsimcommand.h
helpcommand.cpp
helpcommand.h
homovacommand.cpp
homovacommand.h
indicatorcommand.cpp
indicatorcommand.h
inputdata.cpp
inputdata.h
libshuffcommand.cpp
libshuffcommand.h
listseqscommand.cpp
listseqscommand.h
makefastqcommand.cpp
makefastqcommand.h
makegroupcommand.cpp
makegroupcommand.h
mantelcommand.cpp
mantelcommand.h
matrixoutputcommand.cpp
matrixoutputcommand.h
mergefilecommand.cpp
mergefilecommand.h
mergegroupscommand.cpp
mergegroupscommand.h
metastatscommand.cpp
metastatscommand.h
mgclustercommand.cpp
mgclustercommand.h
mothur.cpp
mothurout.cpp
mothurout.h
nmdscommand.cpp
nmdscommand.h
nocommands.cpp
nocommands.h
normalizesharedcommand.cpp
normalizesharedcommand.h
optionparser.cpp
otuhierarchycommand.cpp
otuhierarchycommand.h
pairwiseseqscommand.cpp
pairwiseseqscommand.h
parsefastaqcommand.cpp
parsefastaqcommand.h
parselistscommand.cpp
parselistscommand.h
parsimony.cpp
parsimony.h
parsimonycommand.cpp
parsimonycommand.h
pcacommand.cpp
pcacommand.h
pcoacommand.cpp
pcoacommand.h
phylodiversity.h
phylodiversitycommand.cpp
phylodiversitycommand.h
phylotypecommand.cpp
phylotypecommand.h
pipelinepdscommand.cpp
pipelinepdscommand.h
preclustercommand.cpp
preclustercommand.h
quitcommand.cpp
quitcommand.h
rarefact.cpp
rarefact.h
rarefactcommand.cpp
rarefactcommand.h
rarefactsharedcommand.cpp
rarefactsharedcommand.h
readcluster.cpp
readcluster.h
readcolumn.cpp
readcolumn.h
readdistcommand.cpp
readdistcommand.h
readmatrix.hpp
readotu.cpp
readotu.h
readotucommand.cpp
readotucommand.h
readphylip.cpp
readphylip.h
readtree.cpp
readtree.h
readtreecommand.cpp
readtreecommand.h
removegroupscommand.cpp
removegroupscommand.h
removelineagecommand.cpp
removelineagecommand.h
removeotuscommand.cpp
removeotuscommand.h
removerarecommand.cpp
removerarecommand.h
removeseqscommand.cpp
removeseqscommand.h
reversecommand.cpp
reversecommand.h
screenseqscommand.cpp
screenseqscommand.h
secondarystructurecommand.cpp
secondarystructurecommand.h
sensspeccommand.cpp
sensspeccommand.h
seqerrorcommand.cpp
seqerrorcommand.h
seqsummarycommand.cpp
seqsummarycommand.h
setcurrentcommand.cpp
setcurrentcommand.h
setdircommand.cpp
setdircommand.h
setlogfilecommand.cpp
setlogfilecommand.h
sffinfocommand.cpp
sffinfocommand.h
sharedcommand.cpp
sharedcommand.h
sharedjackknife.cpp
sharedjackknife.h
sharedlistvector.cpp
sharedlistvector.h
sharedordervector.cpp
sharedordervector.h
sharedrabundfloatvector.cpp
sharedrabundfloatvector.h
sharedrabundvector.cpp
sharedrabundvector.h
sharedutilities.cpp
sharedutilities.h
shhhercommand.cpp
shhhercommand.h
splitabundcommand.cpp
splitabundcommand.h
splitgroupscommand.cpp
splitgroupscommand.h
subsamplecommand.cpp
subsamplecommand.h
summarycommand.cpp
summarycommand.h
summarysharedcommand.cpp
summarysharedcommand.h
systemcommand.cpp
systemcommand.h
tree.cpp
tree.h
treegroupscommand.cpp
treegroupscommand.h
treemap.cpp
treemap.h
trimflowscommand.cpp
trimflowscommand.h
trimseqscommand.cpp
trimseqscommand.h
unifracunweightedcommand.cpp
unifracunweightedcommand.h
unifracweightedcommand.cpp
unifracweightedcommand.h
unweighted.cpp
unweighted.h
validcalculator.cpp
validcalculator.h
venn.cpp
venn.h
venncommand.cpp
venncommand.h
weighted.cpp
weighted.h