sequenceTools 1.4.0.3 → 1.4.0.4

raw patch · 3 files changed

+9/−4 lines, 3 files

Files

• Changelog.md +5/−0
• sequenceTools.cabal +1/−1
• src-executables/pileupCaller.hs +3/−3

@@ -13,3 +13,8 @@ V 1.4.0.1: Improved README, fixed output bug in genoStats.hs  V 1.4.0.3: Updated to new sequence-formats version, now including reading of genetic position from eigenstrat files.++V 1.4.0.4:+* Fixed eigenstrat-output in pileupCaller to add a dot after the outputprefix before the file extensions.+* Updated haskell-stack wrapper scripts for EIGENSOFT and ADMIXTOOLS.+* Moved unmaintained scripts into unmaintained folder.

@@ -1,6 +1,6 @@ cabal-version: >=1.10 name: sequenceTools-version: 1.4.0.3+version: 1.4.0.4 license: GPL-3 license-file: LICENSE maintainer: stephan.schiffels@mac.com

@@ -286,9 +286,9 @@             RandomCalling -> True             MajorityCalling _ -> True             RandomDiploidCalling -> False-    let snpOut = outPrefix <> "snp.txt"-        indOut = outPrefix <> "ind.txt"-        genoOut = outPrefix <> "geno.txt"+    let snpOut = outPrefix <> ".snp.txt"+        indOut = outPrefix <> ".ind.txt"+        genoOut = outPrefix <> ".geno.txt"     let indEntries = [EigenstratIndEntry n Unknown popName | n <- sampleNames]     lift . runEffect $ freqSumProducer >-> filterTransitions transitionsMode >->                 P.map (freqSumToEigenstrat diploidizeCall) >->