Resolving dependencies... Configuring binary-0.4.5... Building binary-0.4.5... Preprocessing library binary-0.4.5... src/Data/Binary/Get.hs:2:16: Warning: -fglasgow-exts is deprecated: Use individual extensions instead src/Data/Binary/Builder.hs:2:16: Warning: -fglasgow-exts is deprecated: Use individual extensions instead [1 of 4] Compiling Data.Binary.Builder ( src/Data/Binary/Builder.hs, dist/build/Data/Binary/Builder.o ) src/Data/Binary/Builder.hs:60:1: Warning: The import of `Data.Word' is redundant except perhaps to import instances from `Data.Word' To import instances alone, use: import Data.Word() src/Data/Binary/Builder.hs:70:1: Warning: The qualified import of `Data.ByteString.Lazy.Internal' is redundant except perhaps to import instances from `Data.ByteString.Lazy.Internal' To import instances alone, use: import Data.ByteString.Lazy.Internal() src/Data/Binary/Builder.hs:168:37: Warning: In the use of `unsafePerformIO' (imported from Foreign): Deprecated: "Use System.IO.Unsafe.unsafePerformIO instead; This function will be removed in the next release" [2 of 4] Compiling Data.Binary.Get ( src/Data/Binary/Get.hs, dist/build/Data/Binary/Get.o ) src/Data/Binary/Get.hs:99:1: Warning: The import of `GHC.Int' is redundant except perhaps to import instances from `GHC.Int' To import instances alone, use: import GHC.Int() src/Data/Binary/Get.hs:368:15: Warning: In the use of `unsafeInterleaveST' (imported from Control.Monad.ST): Deprecated: "Please import from Control.Monad.ST.Unsafe instead; This will be removed in the next release" src/Data/Binary/Get.hs:379:48: Warning: In the use of `unsafeInterleaveST' (imported from Control.Monad.ST): Deprecated: "Please import from Control.Monad.ST.Unsafe instead; This will be removed in the next release" [3 of 4] Compiling Data.Binary.Put ( src/Data/Binary/Put.hs, dist/build/Data/Binary/Put.o ) src/Data/Binary/Put.hs:64:16: Warning: Ignoring unusable UNPACK pragma on the second argument of `PairS' In the definition of data constructor `PairS' In the data declaration for `PairS' [4 of 4] Compiling Data.Binary ( src/Data/Binary.hs, dist/build/Data/Binary.o ) src/Data/Binary.hs:66:1: Warning: The import of `System.IO' is redundant except perhaps to import instances from `System.IO' To import instances alone, use: import System.IO() In-place registering binary-0.4.5... Running Haddock for binary-0.4.5... Running hscolour for binary-0.4.5... Preprocessing library binary-0.4.5... Preprocessing library binary-0.4.5... src/Data/Binary/Get.hs:2:16: Warning: -fglasgow-exts is deprecated: Use individual extensions instead src/Data/Binary/Builder.hs:2:16: Warning: -fglasgow-exts is deprecated: Use individual extensions instead src/Data/Binary/Get.hs:2:16: Warning: -fglasgow-exts is deprecated: Use individual extensions instead src/Data/Binary/Builder.hs:2:16: Warning: -fglasgow-exts is deprecated: Use individual extensions instead src/Data/Binary/Builder.hs:60:1: Warning: The import of `Data.Word' is redundant except perhaps to import instances from `Data.Word' To import instances alone, use: import Data.Word() src/Data/Binary/Builder.hs:70:1: Warning: The qualified import of `Data.ByteString.Lazy.Internal' is redundant except perhaps to import instances from `Data.ByteString.Lazy.Internal' To import instances alone, use: import Data.ByteString.Lazy.Internal() src/Data/Binary/Builder.hs:168:37: Warning: In the use of `unsafePerformIO' (imported from Foreign): Deprecated: "Use System.IO.Unsafe.unsafePerformIO instead; This function will be removed in the next release" src/Data/Binary/Get.hs:99:1: Warning: The import of `GHC.Int' is redundant except perhaps to import instances from `GHC.Int' To import instances alone, use: import GHC.Int() src/Data/Binary/Get.hs:368:15: Warning: In the use of `unsafeInterleaveST' (imported from Control.Monad.ST): Deprecated: "Please import from Control.Monad.ST.Unsafe instead; This will be removed in the next release" src/Data/Binary/Get.hs:379:48: Warning: In the use of `unsafeInterleaveST' (imported from Control.Monad.ST): Deprecated: "Please import from Control.Monad.ST.Unsafe instead; This will be removed in the next release" src/Data/Binary/Put.hs:64:16: Warning: Ignoring unusable UNPACK pragma on the second argument of `PairS' In the definition of data constructor `PairS' In the data declaration for `PairS' src/Data/Binary.hs:66:1: Warning: The import of `System.IO' is redundant except perhaps to import instances from `System.IO' To import instances alone, use: import System.IO() Haddock coverage: 100% ( 26 / 26) in 'Data.Binary.Builder' 100% ( 37 / 37) in 'Data.Binary.Get' 100% ( 24 / 24) in 'Data.Binary.Put' 100% ( 17 / 17) in 'Data.Binary' Warning: Data.Binary.Get: could not find link destinations for: Data.Binary.Get.get Warning: Data.Binary.Put: could not find link destinations for: Data.Binary.Put.PairS Documentation created: dist/doc/html/binary/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/binary-0.4.5 Registering binary-0.4.5... Installed binary-0.4.5 Configuring cmdargs-0.10.5... Building cmdargs-0.10.5... Preprocessing library cmdargs-0.10.5... [ 1 of 25] Compiling System.Console.CmdArgs.Implicit.Ann ( System/Console/CmdArgs/Implicit/Ann.hs, dist/build/System/Console/CmdArgs/Implicit/Ann.o ) [ 2 of 25] Compiling System.Console.CmdArgs.Implicit.UI ( System/Console/CmdArgs/Implicit/UI.hs, dist/build/System/Console/CmdArgs/Implicit/UI.o ) [ 3 of 25] Compiling System.Console.CmdArgs.Verbosity ( System/Console/CmdArgs/Verbosity.hs, dist/build/System/Console/CmdArgs/Verbosity.o ) [ 4 of 25] Compiling System.Console.CmdArgs.Implicit.Type ( System/Console/CmdArgs/Implicit/Type.hs, dist/build/System/Console/CmdArgs/Implicit/Type.o ) [ 5 of 25] Compiling System.Console.CmdArgs.Explicit.SplitJoin ( System/Console/CmdArgs/Explicit/SplitJoin.hs, dist/build/System/Console/CmdArgs/Explicit/SplitJoin.o ) [ 6 of 25] Compiling System.Console.CmdArgs.Explicit.ExpandArgsAt ( System/Console/CmdArgs/Explicit/ExpandArgsAt.hs, dist/build/System/Console/CmdArgs/Explicit/ExpandArgsAt.o ) [ 7 of 25] Compiling System.Console.CmdArgs.Explicit.Type ( System/Console/CmdArgs/Explicit/Type.hs, dist/build/System/Console/CmdArgs/Explicit/Type.o ) [ 8 of 25] Compiling System.Console.CmdArgs.Explicit.Process ( System/Console/CmdArgs/Explicit/Process.hs, dist/build/System/Console/CmdArgs/Explicit/Process.o ) [ 9 of 25] Compiling System.Console.CmdArgs.Explicit.Complete ( System/Console/CmdArgs/Explicit/Complete.hs, dist/build/System/Console/CmdArgs/Explicit/Complete.o ) [10 of 25] Compiling System.Console.CmdArgs.Helper ( System/Console/CmdArgs/Helper.hs, dist/build/System/Console/CmdArgs/Helper.o ) [11 of 25] Compiling System.Console.CmdArgs.Default ( System/Console/CmdArgs/Default.hs, dist/build/System/Console/CmdArgs/Default.o ) [12 of 25] Compiling System.Console.CmdArgs.Text ( System/Console/CmdArgs/Text.hs, dist/build/System/Console/CmdArgs/Text.o ) [13 of 25] Compiling System.Console.CmdArgs.Explicit.Help ( System/Console/CmdArgs/Explicit/Help.hs, dist/build/System/Console/CmdArgs/Explicit/Help.o ) [14 of 25] Compiling System.Console.CmdArgs.Explicit ( System/Console/CmdArgs/Explicit.hs, dist/build/System/Console/CmdArgs/Explicit.o ) [15 of 25] Compiling System.Console.CmdArgs.GetOpt ( System/Console/CmdArgs/GetOpt.hs, dist/build/System/Console/CmdArgs/GetOpt.o ) [16 of 25] Compiling Data.Generics.Any ( Data/Generics/Any.hs, dist/build/Data/Generics/Any.o ) Data/Generics/Any.hs:65:17: Warning: In the use of `tyConString' (imported from Data.Data, but defined in Data.Typeable.Internal): Deprecated: "renamed to tyConName; tyConModule and tyConPackage are also available." [17 of 25] Compiling Data.Generics.Any.Prelude ( Data/Generics/Any/Prelude.hs, dist/build/Data/Generics/Any/Prelude.o ) [18 of 25] Compiling System.Console.CmdArgs.Implicit.Reader ( System/Console/CmdArgs/Implicit/Reader.hs, dist/build/System/Console/CmdArgs/Implicit/Reader.o ) [19 of 25] Compiling System.Console.CmdArgs.Annotate ( System/Console/CmdArgs/Annotate.hs, dist/build/System/Console/CmdArgs/Annotate.o ) [20 of 25] Compiling System.Console.CmdArgs.Implicit.Local ( System/Console/CmdArgs/Implicit/Local.hs, dist/build/System/Console/CmdArgs/Implicit/Local.o ) [21 of 25] Compiling System.Console.CmdArgs.Implicit.Reform ( System/Console/CmdArgs/Implicit/Reform.hs, dist/build/System/Console/CmdArgs/Implicit/Reform.o ) [22 of 25] Compiling System.Console.CmdArgs.Implicit.Global ( System/Console/CmdArgs/Implicit/Global.hs, dist/build/System/Console/CmdArgs/Implicit/Global.o ) [23 of 25] Compiling System.Console.CmdArgs.Implicit ( System/Console/CmdArgs/Implicit.hs, dist/build/System/Console/CmdArgs/Implicit.o ) [24 of 25] Compiling System.Console.CmdArgs.Quote ( System/Console/CmdArgs/Quote.hs, dist/build/System/Console/CmdArgs/Quote.o ) [25 of 25] Compiling System.Console.CmdArgs ( System/Console/CmdArgs.hs, dist/build/System/Console/CmdArgs.o ) In-place registering cmdargs-0.10.5... Running Haddock for cmdargs-0.10.5... Running hscolour for cmdargs-0.10.5... Preprocessing library cmdargs-0.10.5... Preprocessing library cmdargs-0.10.5... Warning: The documentation for the following packages are not installed. No links will be generated to these packages: transformers-0.3.0.0 dist/build/tmp-11584/Data/Generics/Any.hs:65:17: Warning: In the use of `tyConString' (imported from Data.Data, but defined in Data.Typeable.Internal): Deprecated: "renamed to tyConName; tyConModule and tyConPackage are also available." Haddock coverage: 50% ( 1 / 2) in 'System.Console.CmdArgs.Implicit.Ann' 100% ( 21 / 21) in 'System.Console.CmdArgs.Implicit.UI' 100% ( 8 / 8) in 'System.Console.CmdArgs.Verbosity' 25% ( 2 / 8) in 'System.Console.CmdArgs.Implicit.Type' 67% ( 2 / 3) in 'System.Console.CmdArgs.Explicit.SplitJoin' 50% ( 1 / 2) in 'System.Console.CmdArgs.Explicit.ExpandArgsAt' 86% ( 24 / 28) in 'System.Console.CmdArgs.Explicit.Type' 50% ( 1 / 2) in 'System.Console.CmdArgs.Explicit.Process' 60% ( 3 / 5) in 'System.Console.CmdArgs.Explicit.Complete' 100% ( 8 / 8) in 'System.Console.CmdArgs.Helper' 100% ( 2 / 2) in 'System.Console.CmdArgs.Default' 100% ( 5 / 5) in 'System.Console.CmdArgs.Text' 67% ( 2 / 3) in 'System.Console.CmdArgs.Explicit.Help' 93% ( 43 / 46) in 'System.Console.CmdArgs.Explicit' 100% ( 8 / 8) in 'System.Console.CmdArgs.GetOpt' 4% ( 1 / 26) in 'Data.Generics.Any' 0% ( 0 / 20) in 'Data.Generics.Any.Prelude' 0% ( 0 / 3) in 'System.Console.CmdArgs.Implicit.Reader' 100% ( 17 / 17) in 'System.Console.CmdArgs.Annotate' 9% ( 1 / 11) in 'System.Console.CmdArgs.Implicit.Local' 0% ( 0 / 2) in 'System.Console.CmdArgs.Implicit.Reform' 0% ( 0 / 2) in 'System.Console.CmdArgs.Implicit.Global' 100% ( 50 / 50) in 'System.Console.CmdArgs.Implicit' 100% ( 9 / 9) in 'System.Console.CmdArgs.Quote' 100% ( 2 / 2) in 'System.Console.CmdArgs' Warning: System.Console.CmdArgs.Implicit: could not find link destinations for: System.Console.CmdArgs.Implicit.Type.CmdArgsPrivate GHC.IO.Handle.Types.Handle__ Documentation created: dist/doc/html/cmdargs/index.html Installing library in /srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/cmdargs-0.10.5 Registering cmdargs-0.10.5... Installed cmdargs-0.10.5 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... Warning: The documentation for the following packages are not installed. No links will be generated to these packages: text-0.11.2.3 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' Warning: Filesystem.Path: could not find link destinations for: Data.Text.Internal.Text Warning: Filesystem.Path.Rules: could not find link destinations for: Data.Text.Internal.Text Warning: Filesystem.Path.CurrentOS: could not find link destinations for: Data.Text.Internal.Text 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 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... Warning: The documentation for the following packages are not installed. No links will be generated to these packages: text-0.11.2.3 Haddock coverage: 0% ( 0 / 3) in 'Data.Stringable' Warning: Data.Stringable: could not find link destinations for: Data.Text.Internal.Text Data.Text.Lazy.Internal.Text 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... Warning: The documentation for the following packages are not installed. No links will be generated to these packages: text-0.11.2.3 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 Downloading biosff-0.1... Configuring biosff-0.1... Building biosff-0.1... Preprocessing library biosff-0.1... [1 of 3] Compiling Bio.Sequence.SFF_name ( src/Bio/Sequence/SFF_name.hs, dist/build/Bio/Sequence/SFF_name.o ) [2 of 3] Compiling Bio.Sequence.SFF ( src/Bio/Sequence/SFF.hs, dist/build/Bio/Sequence/SFF.o ) src/Bio/Sequence/SFF.hs:77:3: Warning: In the use of `seqlabel' (imported from Bio.Core.Sequence): Deprecated: "Warning: 'seqlabel' is deprecated, use 'seqid' or 'seqheader' instead." [3 of 3] Compiling Bio.Sequence.SFF_filters ( src/Bio/Sequence/SFF_filters.hs, dist/build/Bio/Sequence/SFF_filters.o ) src/Bio/Sequence/SFF_filters.hs:125:1: Warning: Top-level binding with no type signature: flx_linker :: [Char] src/Bio/Sequence/SFF_filters.hs:126:1: Warning: Top-level binding with no type signature: ti_linker :: [Char] src/Bio/Sequence/SFF_filters.hs:134:1: Warning: Top-level binding with no type signature: rna_adapter :: [Char] src/Bio/Sequence/SFF_filters.hs:135:1: Warning: Top-level binding with no type signature: rna_adapter2 :: [Char] src/Bio/Sequence/SFF_filters.hs:136:1: Warning: Top-level binding with no type signature: rna_adapter3 :: [Char] src/Bio/Sequence/SFF_filters.hs:140:1: Warning: Top-level binding with no type signature: rapid_adapter :: [Char] src/Bio/Sequence/SFF_filters.hs:141:1: Warning: Top-level binding with no type signature: ti_adapter_b :: [Char] In-place registering biosff-0.1... Preprocessing executable 'flower' for biosff-0.1... [1 of 8] Compiling Bio.Sequence.SFF_name ( src/Bio/Sequence/SFF_name.hs, dist/build/flower/flower-tmp/Bio/Sequence/SFF_name.o ) [2 of 8] Compiling Fork ( src/Flower/Fork.hs, dist/build/flower/flower-tmp/Fork.o ) [3 of 8] Compiling Options ( src/Flower/Options.hs, dist/build/flower/flower-tmp/Options.o ) [4 of 8] Compiling Bio.Sequence.SFF ( src/Bio/Sequence/SFF.hs, dist/build/flower/flower-tmp/Bio/Sequence/SFF.o ) src/Bio/Sequence/SFF.hs:77:3: Warning: In the use of `seqlabel' (imported from Bio.Core.Sequence): Deprecated: "Warning: 'seqlabel' is deprecated, use 'seqid' or 'seqheader' instead." [5 of 8] Compiling Bio.Sequence.SFF_filters ( src/Bio/Sequence/SFF_filters.hs, dist/build/flower/flower-tmp/Bio/Sequence/SFF_filters.o ) src/Bio/Sequence/SFF_filters.hs:125:1: Warning: Top-level binding with no type signature: flx_linker :: [Char] src/Bio/Sequence/SFF_filters.hs:126:1: Warning: Top-level binding with no type signature: ti_linker :: [Char] src/Bio/Sequence/SFF_filters.hs:134:1: Warning: Top-level binding with no type signature: rna_adapter :: [Char] src/Bio/Sequence/SFF_filters.hs:135:1: Warning: Top-level binding with no type signature: rna_adapter2 :: [Char] src/Bio/Sequence/SFF_filters.hs:136:1: Warning: Top-level binding with no type signature: rna_adapter3 :: [Char] src/Bio/Sequence/SFF_filters.hs:140:1: Warning: Top-level binding with no type signature: rapid_adapter :: [Char] src/Bio/Sequence/SFF_filters.hs:141:1: Warning: Top-level binding with no type signature: ti_adapter_b :: [Char] [6 of 8] Compiling Metrics ( src/Flower/Metrics.hs, dist/build/flower/flower-tmp/Metrics.o ) [7 of 8] Compiling Print ( src/Flower/Print.hs, dist/build/flower/flower-tmp/Print.o ) [8 of 8] Compiling Main ( src/Flower/Main.hs, dist/build/flower/flower-tmp/Main.o ) src/Flower/Main.hs:124:14: Ambiguous occurrence `toLazyByteString' It could refer to either `Bio.Core.toLazyByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.toLazyByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') src/Flower/Main.hs:145:40: Ambiguous occurrence `fromByteString' It could refer to either `Bio.Core.fromByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.fromByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') src/Flower/Main.hs:148:27: Ambiguous occurrence `fromByteString' It could refer to either `Bio.Core.fromByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.fromByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') src/Flower/Main.hs:148:69: Ambiguous occurrence `fromByteString' It could refer to either `Bio.Core.fromByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.fromByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') src/Flower/Main.hs:156:18: Ambiguous occurrence `toLazyByteString' It could refer to either `Bio.Core.toLazyByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.toLazyByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') src/Flower/Main.hs:158:14: Ambiguous occurrence `fromByteString' It could refer to either `Bio.Core.fromByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.fromByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') src/Flower/Main.hs:169:44: Ambiguous occurrence `fromByteString' It could refer to either `Bio.Core.fromByteString', imported from `Bio.Core' at src/Flower/Main.hs:6:1-15 (and originally defined in `stringable-0.1.2:Data.Stringable') or `Print.fromByteString', imported from `Print' at src/Flower/Main.hs:8:1-12 (and originally defined in `Data.Binary.Builder') Failed to install biosff-0.1 cabal: Error: some packages failed to install: biosff-0.1 failed during the building phase. The exception was: ExitFailure 1