Resolving dependencies... Configuring attoparsec-0.10.4.0... Building attoparsec-0.10.4.0... Preprocessing library attoparsec-0.10.4.0... [ 1 of 18] Compiling Data.Attoparsec.Text.FastSet ( Data/Attoparsec/Text/FastSet.hs, dist/build/Data/Attoparsec/Text/FastSet.o ) [ 2 of 18] Compiling Data.Attoparsec.Zepto ( Data/Attoparsec/Zepto.hs, dist/build/Data/Attoparsec/Zepto.o ) [ 3 of 18] Compiling Data.Attoparsec.Number ( Data/Attoparsec/Number.hs, dist/build/Data/Attoparsec/Number.o ) [ 4 of 18] Compiling Data.Attoparsec.ByteString.FastSet ( Data/Attoparsec/ByteString/FastSet.hs, dist/build/Data/Attoparsec/ByteString/FastSet.o ) [ 5 of 18] Compiling Data.Attoparsec.Internal.Types ( Data/Attoparsec/Internal/Types.hs, dist/build/Data/Attoparsec/Internal/Types.o ) [ 6 of 18] Compiling Data.Attoparsec.Types ( Data/Attoparsec/Types.hs, dist/build/Data/Attoparsec/Types.o ) [ 7 of 18] Compiling Data.Attoparsec.Internal ( Data/Attoparsec/Internal.hs, dist/build/Data/Attoparsec/Internal.o ) [ 8 of 18] Compiling Data.Attoparsec.Combinator ( Data/Attoparsec/Combinator.hs, dist/build/Data/Attoparsec/Combinator.o ) [ 9 of 18] Compiling Data.Attoparsec.ByteString.Internal ( Data/Attoparsec/ByteString/Internal.hs, dist/build/Data/Attoparsec/ByteString/Internal.o ) [10 of 18] Compiling Data.Attoparsec.Text.Internal ( Data/Attoparsec/Text/Internal.hs, dist/build/Data/Attoparsec/Text/Internal.o ) [11 of 18] Compiling Data.Attoparsec.Text ( Data/Attoparsec/Text.hs, dist/build/Data/Attoparsec/Text.o ) [12 of 18] Compiling Data.Attoparsec.Text.Lazy ( Data/Attoparsec/Text/Lazy.hs, dist/build/Data/Attoparsec/Text/Lazy.o ) [13 of 18] Compiling Data.Attoparsec.ByteString ( Data/Attoparsec/ByteString.hs, dist/build/Data/Attoparsec/ByteString.o ) [14 of 18] Compiling Data.Attoparsec.ByteString.Char8 ( Data/Attoparsec/ByteString/Char8.hs, dist/build/Data/Attoparsec/ByteString/Char8.o ) [15 of 18] Compiling Data.Attoparsec.Char8 ( Data/Attoparsec/Char8.hs, dist/build/Data/Attoparsec/Char8.o ) [16 of 18] Compiling Data.Attoparsec.ByteString.Lazy ( Data/Attoparsec/ByteString/Lazy.hs, dist/build/Data/Attoparsec/ByteString/Lazy.o ) [17 of 18] Compiling Data.Attoparsec.Lazy ( Data/Attoparsec/Lazy.hs, dist/build/Data/Attoparsec/Lazy.o ) [18 of 18] Compiling Data.Attoparsec ( Data/Attoparsec.hs, dist/build/Data/Attoparsec.o ) In-place registering attoparsec-0.10.4.0... Running Haddock for attoparsec-0.10.4.0... Running hscolour for attoparsec-0.10.4.0... Preprocessing library attoparsec-0.10.4.0... Preprocessing library attoparsec-0.10.4.0... Haddock coverage: 70% ( 7 / 10) in 'Data.Attoparsec.Text.FastSet' 100% ( 7 / 7) in 'Data.Attoparsec.Zepto' 100% ( 2 / 2) in 'Data.Attoparsec.Number' 69% ( 9 / 13) in 'Data.Attoparsec.ByteString.FastSet' 40% ( 4 / 10) in 'Data.Attoparsec.Internal.Types' 100% ( 3 / 3) in 'Data.Attoparsec.Types' 100% ( 2 / 2) in 'Data.Attoparsec.Internal' 100% ( 16 / 16) in 'Data.Attoparsec.Combinator' 90% ( 37 / 41) in 'Data.Attoparsec.ByteString.Internal' 95% ( 38 / 40) in 'Data.Attoparsec.Text.Internal' 97% ( 71 / 73) in 'Data.Attoparsec.Text' 100% ( 9 / 9) in 'Data.Attoparsec.Text.Lazy' 96% ( 48 / 50) in 'Data.Attoparsec.ByteString' 97% ( 73 / 75) in 'Data.Attoparsec.ByteString.Char8' 100% ( 2 / 2) in 'Data.Attoparsec.Char8' 100% ( 9 / 9) in 'Data.Attoparsec.ByteString.Lazy' 100% ( 2 / 2) in 'Data.Attoparsec.Lazy' 100% ( 2 / 2) in 'Data.Attoparsec' Documentation created: dist/doc/html/attoparsec/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/attoparsec-0.10.4.0 Registering attoparsec-0.10.4.0... Installed attoparsec-0.10.4.0 Configuring primitive-0.5.1.0... Building primitive-0.5.1.0... Preprocessing library primitive-0.5.1.0... [ 1 of 10] Compiling Data.Primitive.Internal.Compat ( Data/Primitive/Internal/Compat.hs, dist/build/Data/Primitive/Internal/Compat.o ) [ 2 of 10] Compiling Data.Primitive.MachDeps ( Data/Primitive/MachDeps.hs, dist/build/Data/Primitive/MachDeps.o ) [ 3 of 10] Compiling Data.Primitive.Internal.Operations ( Data/Primitive/Internal/Operations.hs, dist/build/Data/Primitive/Internal/Operations.o ) [ 4 of 10] Compiling Control.Monad.Primitive ( Control/Monad/Primitive.hs, dist/build/Control/Monad/Primitive.o ) [ 5 of 10] Compiling Data.Primitive.Types ( Data/Primitive/Types.hs, dist/build/Data/Primitive/Types.o ) [ 6 of 10] Compiling Data.Primitive.Array ( Data/Primitive/Array.hs, dist/build/Data/Primitive/Array.o ) [ 7 of 10] Compiling Data.Primitive.ByteArray ( Data/Primitive/ByteArray.hs, dist/build/Data/Primitive/ByteArray.o ) [ 8 of 10] Compiling Data.Primitive.Addr ( Data/Primitive/Addr.hs, dist/build/Data/Primitive/Addr.o ) [ 9 of 10] Compiling Data.Primitive ( Data/Primitive.hs, dist/build/Data/Primitive.o ) [10 of 10] Compiling Data.Primitive.MutVar ( Data/Primitive/MutVar.hs, dist/build/Data/Primitive/MutVar.o ) In-place registering primitive-0.5.1.0... Running Haddock for primitive-0.5.1.0... Running hscolour for primitive-0.5.1.0... Preprocessing library primitive-0.5.1.0... Preprocessing library primitive-0.5.1.0... Haddock coverage: 67% ( 2 / 3) in 'Data.Primitive.Internal.Compat' 3% ( 1 / 35) in 'Data.Primitive.MachDeps' 3% ( 1 / 29) in 'Data.Primitive.Internal.Operations' Warning: Control.Monad.Primitive: We do not support associated types in instances yet. These instances are affected: Control.Monad.Primitive.PrimMonad GHC.Types.IO, Control.Monad.Primitive.PrimMonad (GHC.ST.ST s) 71% ( 10 / 14) in 'Control.Monad.Primitive' 100% ( 3 / 3) in 'Data.Primitive.Types' 100% ( 13 / 13) in 'Data.Primitive.Array' 93% ( 27 / 29) in 'Data.Primitive.ByteArray' 100% ( 16 / 16) in 'Data.Primitive.Addr' 100% ( 7 / 7) in 'Data.Primitive' 100% ( 7 / 7) in 'Data.Primitive.MutVar' Documentation created: dist/doc/html/primitive/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/primitive-0.5.1.0 Registering primitive-0.5.1.0... Installed primitive-0.5.1.0 Configuring system-filepath-0.4.8... Building system-filepath-0.4.8... Preprocessing library system-filepath-0.4.8... [1 of 4] Compiling Filesystem.Path.Internal ( lib/Filesystem/Path/Internal.hs, dist/build/Filesystem/Path/Internal.o ) [2 of 4] Compiling Filesystem.Path ( lib/Filesystem/Path.hs, dist/build/Filesystem/Path.o ) [3 of 4] Compiling Filesystem.Path.Rules ( lib/Filesystem/Path/Rules.hs, dist/build/Filesystem/Path/Rules.o ) [4 of 4] Compiling Filesystem.Path.CurrentOS ( lib/Filesystem/Path/CurrentOS.hs, dist/build/Filesystem/Path/CurrentOS.o ) In-place registering system-filepath-0.4.8... Running Haddock for system-filepath-0.4.8... Running hscolour for system-filepath-0.4.8... Preprocessing library system-filepath-0.4.8... Preprocessing library system-filepath-0.4.8... Haddock coverage: 9% ( 2 / 23) in 'Filesystem.Path.Internal' 97% ( 33 / 34) in 'Filesystem.Path' 94% ( 17 / 18) in 'Filesystem.Path.Rules' 92% ( 12 / 13) in 'Filesystem.Path.CurrentOS' Documentation created: dist/doc/html/system-filepath/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/system-filepath-0.4.8 Registering system-filepath-0.4.8... Installed system-filepath-0.4.8 Configuring vector-0.10.9.1... Building vector-0.10.9.1... Preprocessing library vector-0.10.9.1... [ 1 of 19] Compiling Data.Vector.Storable.Internal ( Data/Vector/Storable/Internal.hs, dist/build/Data/Vector/Storable/Internal.o ) [ 2 of 19] Compiling Data.Vector.Fusion.Util ( Data/Vector/Fusion/Util.hs, dist/build/Data/Vector/Fusion/Util.o ) [ 3 of 19] Compiling Data.Vector.Fusion.Stream.Size ( Data/Vector/Fusion/Stream/Size.hs, dist/build/Data/Vector/Fusion/Stream/Size.o ) Data/Vector/Fusion/Stream/Size.hs:25:10: Warning: No explicit method or default declaration for `*' In the instance declaration for `Num Size' Data/Vector/Fusion/Stream/Size.hs:25:10: Warning: No explicit method or default declaration for `abs' In the instance declaration for `Num Size' Data/Vector/Fusion/Stream/Size.hs:25:10: Warning: No explicit method or default declaration for `signum' In the instance declaration for `Num Size' [ 4 of 19] Compiling Data.Vector.Internal.Check ( Data/Vector/Internal/Check.hs, dist/build/Data/Vector/Internal/Check.o ) [ 5 of 19] Compiling Data.Vector.Fusion.Stream.Monadic ( Data/Vector/Fusion/Stream/Monadic.hs, dist/build/Data/Vector/Fusion/Stream/Monadic.o ) Loading package ghc-prim ... linking ... done. Loading package integer-gmp ... linking ... done. Loading package base ... linking ... done. Loading package primitive-0.5.1.0 ... linking ... done. Loading package array-0.4.0.1 ... linking ... done. Loading package deepseq-1.3.0.1 ... linking ... done. [ 6 of 19] Compiling Data.Vector.Fusion.Stream ( Data/Vector/Fusion/Stream.hs, dist/build/Data/Vector/Fusion/Stream.o ) [ 7 of 19] Compiling Data.Vector.Generic.Mutable ( Data/Vector/Generic/Mutable.hs, dist/build/Data/Vector/Generic/Mutable.o ) [ 8 of 19] Compiling Data.Vector.Generic.Base ( Data/Vector/Generic/Base.hs, dist/build/Data/Vector/Generic/Base.o ) [ 9 of 19] Compiling Data.Vector.Generic.New ( Data/Vector/Generic/New.hs, dist/build/Data/Vector/Generic/New.o ) [10 of 19] Compiling Data.Vector.Generic ( Data/Vector/Generic.hs, dist/build/Data/Vector/Generic.o ) [11 of 19] Compiling Data.Vector.Primitive.Mutable ( Data/Vector/Primitive/Mutable.hs, dist/build/Data/Vector/Primitive/Mutable.o ) [12 of 19] Compiling Data.Vector.Primitive ( Data/Vector/Primitive.hs, dist/build/Data/Vector/Primitive.o ) [13 of 19] Compiling Data.Vector.Storable.Mutable ( Data/Vector/Storable/Mutable.hs, dist/build/Data/Vector/Storable/Mutable.o ) [14 of 19] Compiling Data.Vector.Storable ( Data/Vector/Storable.hs, dist/build/Data/Vector/Storable.o ) [15 of 19] Compiling Data.Vector.Unboxed.Base ( Data/Vector/Unboxed/Base.hs, dist/build/Data/Vector/Unboxed/Base.o ) [16 of 19] Compiling Data.Vector.Unboxed ( Data/Vector/Unboxed.hs, dist/build/Data/Vector/Unboxed.o ) [17 of 19] Compiling Data.Vector.Unboxed.Mutable ( Data/Vector/Unboxed/Mutable.hs, dist/build/Data/Vector/Unboxed/Mutable.o ) [18 of 19] Compiling Data.Vector.Mutable ( Data/Vector/Mutable.hs, dist/build/Data/Vector/Mutable.o ) [19 of 19] Compiling Data.Vector ( Data/Vector.hs, dist/build/Data/Vector.o ) In-place registering vector-0.10.9.1... Running Haddock for vector-0.10.9.1... Running hscolour for vector-0.10.9.1... Preprocessing library vector-0.10.9.1... Preprocessing library vector-0.10.9.1... Data/Vector/Fusion/Stream/Size.hs:25:10: Warning: No explicit method or default declaration for `*' In the instance declaration for `Num Size' Data/Vector/Fusion/Stream/Size.hs:25:10: Warning: No explicit method or default declaration for `abs' In the instance declaration for `Num Size' Data/Vector/Fusion/Stream/Size.hs:25:10: Warning: No explicit method or default declaration for `signum' In the instance declaration for `Num Size' Haddock coverage: 25% ( 1 / 4) in 'Data.Vector.Storable.Internal' 100% ( 5 / 5) in 'Data.Vector.Fusion.Util' 100% ( 6 / 6) in 'Data.Vector.Fusion.Stream.Size' 11% ( 1 / 9) in 'Data.Vector.Internal.Check' 83% (104 /126) in 'Data.Vector.Fusion.Stream.Monadic' 85% ( 88 /104) in 'Data.Vector.Fusion.Stream' 64% ( 42 / 66) in 'Data.Vector.Generic.Mutable' 100% ( 3 / 3) in 'Data.Vector.Generic.Base' 5% ( 1 / 20) in 'Data.Vector.Generic.New' 93% (215 /232) in 'Data.Vector.Generic' 76% ( 38 / 50) in 'Data.Vector.Primitive.Mutable' Warning: Data.Vector.Primitive: Instances of type and data families are not yet supported. Instances of the following families will be filtered out: Mutable 97% (185 /191) in 'Data.Vector.Primitive' 79% ( 46 / 58) in 'Data.Vector.Storable.Mutable' Warning: Data.Vector.Storable: Instances of type and data families are not yet supported. Instances of the following families will be filtered out: Mutable 97% (194 /200) in 'Data.Vector.Storable' Warning: Data.Vector.Unboxed.Base: Instances of type and data families are not yet supported. Instances of the following families will be filtered out: Mutable, MVector, Vector 17% ( 1 / 6) in 'Data.Vector.Unboxed.Base' 96% (201 /210) in 'Data.Vector.Unboxed' 77% ( 47 / 61) in 'Data.Vector.Unboxed.Mutable' 76% ( 37 / 49) in 'Data.Vector.Mutable' Warning: Data.Vector: Instances of type and data families are not yet supported. Instances of the following families will be filtered out: Mutable 94% (199 /212) in 'Data.Vector' Documentation created: dist/doc/html/vector/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/vector-0.10.9.1 Registering vector-0.10.9.1... Installed vector-0.10.9.1 Configuring stringable-0.1.2... Building stringable-0.1.2... Preprocessing library stringable-0.1.2... [1 of 1] Compiling Data.Stringable ( Data/Stringable.hs, dist/build/Data/Stringable.o ) In-place registering stringable-0.1.2... Running Haddock for stringable-0.1.2... Running hscolour for stringable-0.1.2... Preprocessing library stringable-0.1.2... Preprocessing library stringable-0.1.2... Haddock coverage: 0% ( 0 / 3) in 'Data.Stringable' Documentation created: dist/doc/html/stringable/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/stringable-0.1.2 Registering stringable-0.1.2... Installed stringable-0.1.2 Configuring biocore-0.3.1... Building biocore-0.3.1... Preprocessing library biocore-0.3.1... [1 of 3] Compiling Bio.Core.Strand ( src/Bio/Core/Strand.hs, dist/build/Bio/Core/Strand.o ) [2 of 3] Compiling Bio.Core.Sequence ( src/Bio/Core/Sequence.hs, dist/build/Bio/Core/Sequence.o ) [3 of 3] Compiling Bio.Core ( src/Bio/Core.hs, dist/build/Bio/Core.o ) In-place registering biocore-0.3.1... Running Haddock for biocore-0.3.1... Running hscolour for biocore-0.3.1... Preprocessing library biocore-0.3.1... Preprocessing library biocore-0.3.1... Haddock coverage: 100% ( 2 / 2) in 'Bio.Core.Strand' 100% ( 15 / 15) in 'Bio.Core.Sequence' 100% ( 3 / 3) in 'Bio.Core' Documentation created: dist/doc/html/biocore/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/biocore-0.3.1 Registering biocore-0.3.1... Installed biocore-0.3.1 Configuring seqloc-0.5.1.1... Building seqloc-0.5.1.1... Preprocessing library seqloc-0.5.1.1... [1 of 8] Compiling Bio.SeqLoc.SeqLike ( src/Bio/SeqLoc/SeqLike.hs, dist/build/Bio/SeqLoc/SeqLike.o ) [2 of 8] Compiling Bio.SeqLoc.LocRepr ( src/Bio/SeqLoc/LocRepr.hs, dist/build/Bio/SeqLoc/LocRepr.o ) [3 of 8] Compiling Bio.SeqLoc.Strand ( src/Bio/SeqLoc/Strand.hs, dist/build/Bio/SeqLoc/Strand.o ) [4 of 8] Compiling Bio.SeqLoc.Position ( src/Bio/SeqLoc/Position.hs, dist/build/Bio/SeqLoc/Position.o ) src/Bio/SeqLoc/Position.hs:24:1: Warning: The import of `Control.Arrow' is redundant except perhaps to import instances from `Control.Arrow' To import instances alone, use: import Control.Arrow() [5 of 8] Compiling Bio.SeqLoc.Location ( src/Bio/SeqLoc/Location.hs, dist/build/Bio/SeqLoc/Location.o ) [6 of 8] Compiling Bio.SeqLoc.SpliceLocation ( src/Bio/SeqLoc/SpliceLocation.hs, dist/build/Bio/SeqLoc/SpliceLocation.o ) [7 of 8] Compiling Bio.SeqLoc.OnSeq ( src/Bio/SeqLoc/OnSeq.hs, dist/build/Bio/SeqLoc/OnSeq.o ) src/Bio/SeqLoc/OnSeq.hs:80:3: Warning: In the use of `seqlabel' (imported from Bio.Core.Sequence): Deprecated: "Warning: 'seqlabel' is deprecated, use 'seqid' or 'seqheader' instead." [8 of 8] Compiling Bio.SeqLoc.Transcript ( src/Bio/SeqLoc/Transcript.hs, dist/build/Bio/SeqLoc/Transcript.o ) In-place registering seqloc-0.5.1.1... Running Haddock for seqloc-0.5.1.1... Running hscolour for seqloc-0.5.1.1... Preprocessing library seqloc-0.5.1.1... Preprocessing library seqloc-0.5.1.1... dist/build/tmp-30894/src/Bio/SeqLoc/Position.hs:24:1: Warning: The import of `Control.Arrow' is redundant except perhaps to import instances from `Control.Arrow' To import instances alone, use: import Control.Arrow() dist/build/tmp-30894/src/Bio/SeqLoc/OnSeq.hs:80:3: Warning: In the use of `seqlabel' (imported from Bio.Core.Sequence): Deprecated: "Warning: 'seqlabel' is deprecated, use 'seqid' or 'seqheader' instead." Haddock coverage: 0% ( 0 / 2) in 'Bio.SeqLoc.SeqLike' 0% ( 0 / 6) in 'Bio.SeqLoc.LocRepr' 100% ( 5 / 5) in 'Bio.SeqLoc.Strand' 100% ( 8 / 8) in 'Bio.SeqLoc.Position' 83% ( 10 / 12) in 'Bio.SeqLoc.Location' 38% ( 3 / 8) in 'Bio.SeqLoc.SpliceLocation' 62% ( 8 / 13) in 'Bio.SeqLoc.OnSeq' 92% ( 12 / 13) in 'Bio.SeqLoc.Transcript' Documentation created: dist/doc/html/seqloc/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/seqloc-0.5.1.1 Registering seqloc-0.5.1.1... Installed seqloc-0.5.1.1 Downloading samtools-0.2... Configuring samtools-0.2... Building samtools-0.2... Preprocessing library samtools-0.2... src/Bio/SamTools/Bam.hs:1:1: Ambiguous module name `Prelude': it was found in multiple packages: base haskell98-2.0.0.2 Failed to install samtools-0.2 cabal: Error: some packages failed to install: samtools-0.2 failed during the building phase. The exception was: ExitFailure 1