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work on fixing up bioconductor packages

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This commit is contained in:
Jeffrey David Johnson 2016-03-31 11:36:39 -07:00
parent c9934bbcb8
commit 3c0fb5ede1
1 changed files with 2 additions and 4 deletions
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6
pkgs/development/r-modules/default.nix
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@ -369,9 +369,7 @@ let
ShortRead = [ pkgs.zlib ]; ShortRead = [ pkgs.zlib ];
oligo = [ pkgs.zlib ]; oligo = [ pkgs.zlib ];
gmapR = [ pkgs.zlib ]; gmapR = [ pkgs.zlib ];
ncdf = [ pkgs.netcdf ];
Rsubread = [ pkgs.zlib ]; Rsubread = [ pkgs.zlib ];
SemiCompRisks = [ pkgs.gsl_1 ];
XVector = [ pkgs.zlib ]; XVector = [ pkgs.zlib ];
Rsamtools = [ pkgs.zlib ]; Rsamtools = [ pkgs.zlib ];
rtracklayer = [ pkgs.zlib ]; rtracklayer = [ pkgs.zlib ];
@ -698,6 +696,8 @@ let
# Packages which cannot be installed due to lack of dependencies or other reasons. # Packages which cannot be installed due to lack of dependencies or other reasons.
brokenPackages = [ brokenPackages = [
"spoccutils" # depends on broken package spocc
"mapr" # depends on broken package spocc
"vmsbase" # broken build "vmsbase" # broken build
"vcfR" # broken build "vcfR" # broken build
"strataG" # broken build "strataG" # broken build
@ -1084,14 +1084,12 @@ let
"rjags" # broken build "rjags" # broken build
"proteoQC" # depends on broken package rTANDEM "proteoQC" # depends on broken package rTANDEM
"PGA" # depends on broken package rTANDEM "PGA" # depends on broken package rTANDEM
"cudatoolkit" # broken build
"MBESS" # depends on broken package OpenMx "MBESS" # depends on broken package OpenMx
"IONiseR" # depends on broken package rhdf5 "IONiseR" # depends on broken package rhdf5
"DOQTL" # depends on broken package rhdf5 "DOQTL" # depends on broken package rhdf5
"DmelSGI" # depends on broken package rhdf5 "DmelSGI" # depends on broken package rhdf5
"flowDiv" # depends on broken package ncdfFlow "flowDiv" # depends on broken package ncdfFlow
"ChemmineDrugs" # depends on broken package ChemmineR "ChemmineDrugs" # depends on broken package ChemmineR
"nlopt" # broken build
"stpm" # depends on broken package nloptr "stpm" # depends on broken package nloptr
"sjmisc" # depends on broken package nloptr "sjmisc" # depends on broken package nloptr
"rstanarm" # depends on broken package nloptr "rstanarm" # depends on broken package nloptr