data/libbio-tools-phylo-paml-perl-1.7.3/LICENSE:376: MERCHANTIBILITY ==> MERCHANTABILITY
data/libbio-tools-phylo-paml-perl-1.7.3/MANIFEST:56: tre ==> tree
data/libbio-tools-phylo-paml-perl-1.7.3/t/PAML-run.t:144: approrpriately ==> appropriately
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_parse.mlc:31: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_parse.mlc:41: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_parse.mlc:81: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_parse.mlc:91: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml315.mlc:7: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml315.mlc:17: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml315.mlc:52: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml315.mlc:62: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nan.mlc:34: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nan.mlc:44: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nan.mlc:56: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nan.mlc:66: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nan.mlc:99: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nan.mlc:109: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00.mlc:39: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00.mlc:49: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00.mlc:63: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00.mlc:73: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/M0.mlc:8: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/M0.mlc:18: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/M0.mlc:48: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/M0.mlc:58: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45b.mlc:44: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45b.mlc:54: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45b.mlc:66: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45b.mlc:76: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45b.mlc:145: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45b.mlc:155: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/bug3331.mlc:28: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/bug3331.mlc:38: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/bug3331.mlc:65: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/bug3331.mlc:75: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nssites.mlc:35: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nssites.mlc:45: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nssites.mlc:57: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nssites.mlc:67: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nssites.mlc:117: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_nssites.mlc:127: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/aaml_pairwise.mlc:15: ND ==> AND, 2ND
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/aaml_pairwise.mlc:17: DAA ==> DATA
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43_nssites.mlc:11: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43_nssites.mlc:21: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43_nssites.mlc:66: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43_nssites.mlc:76: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00_45.mlc:59: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00_45.mlc:69: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00_45.mlc:81: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00_45.mlc:91: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00_45.mlc:105: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/yn00_45.mlc:115: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/cysprot.msf:28: TE ==> THE, BE, WE
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml4.mlc:46: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml4.mlc:56: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml4.mlc:101: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml4.mlc:111: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43.mlc:47: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43.mlc:57: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43.mlc:102: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml43.mlc:112: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/branchSite.mlc:8: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/branchSite.mlc:18: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/branchSite.mlc:48: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/branchSite.mlc:58: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/singleNSsite.mlc:8: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/singleNSsite.mlc:18: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/singleNSsite.mlc:48: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/singleNSsite.mlc:58: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45.mlc:44: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45.mlc:54: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45.mlc:66: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45.mlc:76: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45.mlc:145: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml45.mlc:155: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_lysozyme/mlc:36: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_lysozyme/mlc:46: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_lysozyme/mlc:58: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_lysozyme/mlc:68: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_lysozyme/mlc:118: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/t/data/codeml_lysozyme/mlc:128: Ser ==> Set
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:58: hashreference ==> hash reference
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1143: unparseable ==> unparsable
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1159: unparseable ==> unparsable
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1175: unparseable ==> unparsable
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1267: fancyness ==> fanciness
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1492: seach ==> search
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1707: OTU ==> OUT
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1732: otu ==> out
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1732: otu ==> out
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1803: otu ==> out
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML.pm:1803: otu ==> out
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Codeml.pm:70: tenative ==> tentative
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Codeml.pm:112: OTU ==> OUT
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Codeml.pm:138: otu ==> out
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Codeml.pm:138: otu ==> out
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Result.pm:740: whic ==> which
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Result.pm:757: whic ==> which
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Result.pm:781: OTU ==> OUT
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Result.pm:789: OTU ==> OUT
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Phylo/PAML/Result.pm:900: valuess ==> values
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Codeml.pm:17: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Codeml.pm:74: mamalian ==> mammalian
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Codeml.pm:426: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Codeml.pm:540: mamalian ==> mammalian
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Codeml.pm:607: analysus ==> analysis
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Yn00.pm:17: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Yn00.pm:44: mamalian ==> mammalian
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Yn00.pm:253: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Yn00.pm:318: analysus ==> analysis
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Baseml.pm:15: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Baseml.pm:144: aligment ==> alignment
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Baseml.pm:338: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Baseml.pm:469: analysus ==> analysis
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Evolver.pm:18: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Evolver.pm:134: wont ==> won't
data/libbio-tools-phylo-paml-perl-1.7.3/lib/Bio/Tools/Run/Phylo/PAML/Evolver.pm:412: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/.pc/evolver-program-name.patch/lib/Bio/Tools/Run/Phylo/PAML/Evolver.pm:18: aroud ==> around
data/libbio-tools-phylo-paml-perl-1.7.3/.pc/evolver-program-name.patch/lib/Bio/Tools/Run/Phylo/PAML/Evolver.pm:134: wont ==> won't
data/libbio-tools-phylo-paml-perl-1.7.3/.pc/evolver-program-name.patch/lib/Bio/Tools/Run/Phylo/PAML/Evolver.pm:412: aroud ==> around