Build #1 for bio-0.5.1
| Package | bio-0.5.1 |
|---|
| Install | BuildFailed |
|---|---|
| Docs | NotTried |
| Tests | NotTried |
| Time submitted | unknown |
|---|---|
| Compiler | ghc-7.6.3 |
| OS | linux |
| Arch | x86_64 |
| Dependencies | tagsoup-0.13, random-1.0.1.1, process-1.1.0.2, parsec-3.1.3, parallel-3.2.0.4, old-time-1.1.0.1, mtl-2.1.2, directory-1.2.0.1, containers-0.5.0.0, bytestring-0.10.0.2, binary-0.4.5, base-4.6.0.1, array-0.4.0.1, QuickCheck-2.6 |
| Flags | -test examples |
Code Coverage
No Code Coverage was submitted for this report.
Build log
[view raw]
Resolving dependencies...
Configuring QuickCheck-2.6...
Building QuickCheck-2.6...
Preprocessing library QuickCheck-2.6...
[ 1 of 13] Compiling Test.QuickCheck.Exception ( Test/QuickCheck/Exception.hs, dist/build/Test/QuickCheck/Exception.o )
[ 2 of 13] Compiling Test.QuickCheck.Text ( Test/QuickCheck/Text.hs, dist/build/Test/QuickCheck/Text.o )
[ 3 of 13] Compiling Test.QuickCheck.State ( Test/QuickCheck/State.hs, dist/build/Test/QuickCheck/State.o )
[ 4 of 13] Compiling Test.QuickCheck.Gen ( Test/QuickCheck/Gen.hs, dist/build/Test/QuickCheck/Gen.o )
[ 5 of 13] Compiling Test.QuickCheck.Arbitrary ( Test/QuickCheck/Arbitrary.hs, dist/build/Test/QuickCheck/Arbitrary.o )
[ 6 of 13] Compiling Test.QuickCheck.Poly ( Test/QuickCheck/Poly.hs, dist/build/Test/QuickCheck/Poly.o )
[ 7 of 13] Compiling Test.QuickCheck.Function ( Test/QuickCheck/Function.hs, dist/build/Test/QuickCheck/Function.o )
[ 8 of 13] Compiling Test.QuickCheck.Modifiers ( Test/QuickCheck/Modifiers.hs, dist/build/Test/QuickCheck/Modifiers.o )
[ 9 of 13] Compiling Test.QuickCheck.Property ( Test/QuickCheck/Property.hs, dist/build/Test/QuickCheck/Property.o )
[10 of 13] Compiling Test.QuickCheck.Test ( Test/QuickCheck/Test.hs, dist/build/Test/QuickCheck/Test.o )
[11 of 13] Compiling Test.QuickCheck.All ( Test/QuickCheck/All.hs, dist/build/Test/QuickCheck/All.o )
[12 of 13] Compiling Test.QuickCheck.Monadic ( Test/QuickCheck/Monadic.hs, dist/build/Test/QuickCheck/Monadic.o )
[13 of 13] Compiling Test.QuickCheck ( Test/QuickCheck.hs, dist/build/Test/QuickCheck.o )
In-place registering QuickCheck-2.6...
Running Haddock for QuickCheck-2.6...
Running hscolour for QuickCheck-2.6...
Preprocessing library QuickCheck-2.6...
Preprocessing library QuickCheck-2.6...
Warning: The documentation for the following packages are not installed. No
links will be generated to these packages: random-1.0.1.1
Haddock coverage:
12% ( 1 / 8) in 'Test.QuickCheck.Exception'
0% ( 0 / 18) in 'Test.QuickCheck.Text'
50% ( 1 / 2) in 'Test.QuickCheck.State'
95% ( 20 / 21) in 'Test.QuickCheck.Gen'
92% ( 23 / 25) in 'Test.QuickCheck.Arbitrary'
14% ( 1 / 7) in 'Test.QuickCheck.Poly'
14% ( 1 / 7) in 'Test.QuickCheck.Function'
92% ( 12 / 13) in 'Test.QuickCheck.Modifiers'
59% ( 34 / 58) in 'Test.QuickCheck.Property'
48% ( 13 / 27) in 'Test.QuickCheck.Test'
100% ( 9 / 9) in 'Test.QuickCheck.All'
7% ( 1 / 15) in 'Test.QuickCheck.Monadic'
93% ( 95 /102) in 'Test.QuickCheck'
Warning: Test.QuickCheck.Text: could not find link destinations for:
Test.QuickCheck.Text.Output
Warning: Test.QuickCheck.State: could not find link destinations for:
System.Random.StdGen
Warning: Test.QuickCheck.Gen: could not find link destinations for:
System.Random.StdGen System.Random.Random
Warning: Test.QuickCheck.Arbitrary: could not find link destinations for:
System.Random.Random
Warning: Test.QuickCheck.Property: could not find link destinations for:
Test.QuickCheck.Exception.AnException
Warning: Test.QuickCheck.Test: could not find link destinations for:
System.Random.StdGen
Warning: Test.QuickCheck: could not find link destinations for:
System.Random.StdGen System.Random.Random
Documentation created: dist/doc/html/QuickCheck/index.html
Installing library in
/srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/QuickCheck-2.6
Registering QuickCheck-2.6...
Installed QuickCheck-2.6
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 parallel-3.2.0.4...
Building parallel-3.2.0.4...
Preprocessing library parallel-3.2.0.4...
[1 of 3] Compiling Control.Parallel ( Control/Parallel.hs, dist/build/Control/Parallel.o )
[2 of 3] Compiling Control.Seq ( Control/Seq.hs, dist/build/Control/Seq.o )
[3 of 3] Compiling Control.Parallel.Strategies ( Control/Parallel/Strategies.hs, dist/build/Control/Parallel/Strategies.o )
In-place registering parallel-3.2.0.4...
Running Haddock for parallel-3.2.0.4...
Running hscolour for parallel-3.2.0.4...
Preprocessing library parallel-3.2.0.4...
Preprocessing library parallel-3.2.0.4...
Haddock coverage:
100% ( 3 / 3) in 'Control.Parallel'
72% ( 21 / 29) in 'Control.Seq'
81% ( 68 / 84) in 'Control.Parallel.Strategies'
Documentation created: dist/doc/html/parallel/index.html
Installing library in
/srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/parallel-3.2.0.4
Registering parallel-3.2.0.4...
Installed parallel-3.2.0.4
Configuring tagsoup-0.13...
Building tagsoup-0.13...
Preprocessing library tagsoup-0.13...
[ 1 of 13] Compiling Text.HTML.TagSoup.Entity ( Text/HTML/TagSoup/Entity.hs, dist/build/Text/HTML/TagSoup/Entity.o )
[ 2 of 13] Compiling Text.StringLike ( Text/StringLike.hs, dist/build/Text/StringLike.o )
[ 3 of 13] Compiling Text.HTML.TagSoup.Type ( Text/HTML/TagSoup/Type.hs, dist/build/Text/HTML/TagSoup/Type.o )
[ 4 of 13] Compiling Text.HTML.TagSoup.Match ( Text/HTML/TagSoup/Match.hs, dist/build/Text/HTML/TagSoup/Match.o )
[ 5 of 13] Compiling Text.HTML.TagSoup.Tree ( Text/HTML/TagSoup/Tree.hs, dist/build/Text/HTML/TagSoup/Tree.o )
[ 6 of 13] Compiling Text.HTML.TagSoup.Options ( Text/HTML/TagSoup/Options.hs, dist/build/Text/HTML/TagSoup/Options.o )
[ 7 of 13] Compiling Text.HTML.TagSoup.Implementation ( Text/HTML/TagSoup/Implementation.hs, dist/build/Text/HTML/TagSoup/Implementation.o )
[ 8 of 13] Compiling Text.HTML.TagSoup.Specification ( Text/HTML/TagSoup/Specification.hs, dist/build/Text/HTML/TagSoup/Specification.o )
[ 9 of 13] Compiling Text.HTML.TagSoup.Manual ( Text/HTML/TagSoup/Manual.hs, dist/build/Text/HTML/TagSoup/Manual.o )
[10 of 13] Compiling Text.HTML.TagSoup.Generated ( Text/HTML/TagSoup/Generated.hs, dist/build/Text/HTML/TagSoup/Generated.o )
[11 of 13] Compiling Text.HTML.TagSoup.Render ( Text/HTML/TagSoup/Render.hs, dist/build/Text/HTML/TagSoup/Render.o )
[12 of 13] Compiling Text.HTML.TagSoup.Parser ( Text/HTML/TagSoup/Parser.hs, dist/build/Text/HTML/TagSoup/Parser.o )
[13 of 13] Compiling Text.HTML.TagSoup ( Text/HTML/TagSoup.hs, dist/build/Text/HTML/TagSoup.o )
In-place registering tagsoup-0.13...
Running Haddock for tagsoup-0.13...
Running hscolour for tagsoup-0.13...
Preprocessing library tagsoup-0.13...
Preprocessing library tagsoup-0.13...
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% ( 7 / 7) in 'Text.HTML.TagSoup.Entity'
100% ( 3 / 3) in 'Text.StringLike'
81% ( 22 / 27) in 'Text.HTML.TagSoup.Type'
50% ( 9 / 18) in 'Text.HTML.TagSoup.Match'
67% ( 4 / 6) in 'Text.HTML.TagSoup.Tree'
83% ( 5 / 6) in 'Text.HTML.TagSoup.Options'
0% ( 0 / 32) in 'Text.HTML.TagSoup.Implementation'
0% ( 0 / 2) in 'Text.HTML.TagSoup.Specification'
0% ( 0 / 2) in 'Text.HTML.TagSoup.Manual'
0% ( 0 / 2) in 'Text.HTML.TagSoup.Generated'
100% ( 6 / 6) in 'Text.HTML.TagSoup.Render'
86% ( 6 / 7) in 'Text.HTML.TagSoup.Parser'
100% ( 39 / 39) in 'Text.HTML.TagSoup'
Warning: Text.StringLike: could not find link destinations for:
Data.Text.Internal.Text Data.Text.Lazy.Internal.Text
Documentation created: dist/doc/html/tagsoup/index.html
Installing library in
/srv/hackage/var/build/tmp-install/lib/x86_64-linux-ghc-7.6.3/tagsoup-0.13
Registering tagsoup-0.13...
Installed tagsoup-0.13
Downloading bio-0.5.1...
Configuring bio-0.5.1...
Building bio-0.5.1...
Preprocessing library bio-0.5.1...
[ 1 of 46] Compiling Bio.GFF3.Escape ( Bio/GFF3/Escape.hs, dist/build/Bio/GFF3/Escape.o )
[ 2 of 46] Compiling Bio.Util.Parsex ( Bio/Util/Parsex.hs, dist/build/Bio/Util/Parsex.o )
[ 3 of 46] Compiling Bio.Clustering ( Bio/Clustering.hs, dist/build/Bio/Clustering.o )
[ 4 of 46] Compiling Bio.Alignment.PSL ( Bio/Alignment/PSL.hs, dist/build/Bio/Alignment/PSL.o )
[ 5 of 46] Compiling Bio.Util ( Bio/Util.hs, dist/build/Bio/Util.o )
[ 6 of 46] Compiling Bio.Alignment.BlastData ( Bio/Alignment/BlastData.hs, dist/build/Bio/Alignment/BlastData.o )
[ 7 of 46] Compiling Bio.Alignment.BlastXML ( Bio/Alignment/BlastXML.hs, dist/build/Bio/Alignment/BlastXML.o )
[ 8 of 46] Compiling Bio.Alignment.BlastFlat ( Bio/Alignment/BlastFlat.hs, dist/build/Bio/Alignment/BlastFlat.o )
[ 9 of 46] Compiling Bio.Alignment.Blast ( Bio/Alignment/Blast.hs, dist/build/Bio/Alignment/Blast.o )
[10 of 46] Compiling Bio.Sequence.SFF_name ( Bio/Sequence/SFF_name.hs, dist/build/Bio/Sequence/SFF_name.o )
[11 of 46] Compiling Bio.Sequence.GeneOntology ( Bio/Sequence/GeneOntology.hs, dist/build/Bio/Sequence/GeneOntology.o )
[12 of 46] Compiling Bio.Sequence.KEGG ( Bio/Sequence/KEGG.hs, dist/build/Bio/Sequence/KEGG.o )
[13 of 46] Compiling Bio.Sequence.GOA ( Bio/Sequence/GOA.hs, dist/build/Bio/Sequence/GOA.o )
[14 of 46] Compiling Bio.Sequence.Entropy ( Bio/Sequence/Entropy.hs, dist/build/Bio/Sequence/Entropy.o )
[15 of 46] Compiling Bio.Sequence.SeqData ( Bio/Sequence/SeqData.hs, dist/build/Bio/Sequence/SeqData.o )
[16 of 46] Compiling Bio.Sequence.Fasta ( Bio/Sequence/Fasta.hs, dist/build/Bio/Sequence/Fasta.o )
Bio/Sequence/Fasta.hs:31:1: Warning:
The import of `chr' from module `Data.Char' is redundant
[17 of 46] Compiling Bio.Sequence.FastQ ( Bio/Sequence/FastQ.hs, dist/build/Bio/Sequence/FastQ.o )
[18 of 46] Compiling Bio.Sequence.Phd ( Bio/Sequence/Phd.hs, dist/build/Bio/Sequence/Phd.o )
Bio/Sequence/Phd.hs:33:13: Warning: Defined but not used: `td'
[19 of 46] Compiling Bio.Sequence.TwoBit ( Bio/Sequence/TwoBit.hs, dist/build/Bio/Sequence/TwoBit.o )
Bio/Sequence/TwoBit.hs:247:20:
Could not deduce (Eq t) arising from the literal `0'
from the context (Num t)
bound by the type signature for dec1 :: Num t => t -> Char
at Bio/Sequence/TwoBit.hs:245:16-35
Possible fix:
add (Eq t) to the context of
the type signature for dec1 :: Num t => t -> Char
In the pattern: 0
In a case alternative: 0 -> 'T'
In the expression:
case x of {
0 -> 'T'
1 -> 'C'
2 -> 'A'
3 -> 'G'
_ -> error ("can't decode value " ++ show x) }
Bio/Sequence/TwoBit.hs:251:55:
Could not deduce (Show t) arising from a use of `show'
from the context (Num t)
bound by the type signature for dec1 :: Num t => t -> Char
at Bio/Sequence/TwoBit.hs:245:16-35
Possible fix:
add (Show t) to the context of
the type signature for dec1 :: Num t => t -> Char
In the second argument of `(++)', namely `show x'
In the first argument of `error', namely
`("can't decode value " ++ show x)'
In the expression: error ("can't decode value " ++ show x)
Bio/Sequence/TwoBit.hs:257:18:
Could not deduce (Eq a) arising from a use of `=='
from the context (Num a, Num t)
bound by the type signature for
go :: (Num a, Num t) =>
(a, [a], [a], [t]) -> Maybe (Char, (a, [a], [a], [t]))
at Bio/Sequence/TwoBit.hs:254:14-85
Possible fix:
add (Eq a) to the context of
the type signature for
go :: (Num a, Num t) =>
(a, [a], [a], [t]) -> Maybe (Char, (a, [a], [a], [t]))
In the first argument of `(&&)', namely `pos == l'
In the expression: pos == l && pos == n
In a stmt of a pattern guard for
an equation for `go':
pos == l && pos == n
Failed to install bio-0.5.1
cabal: Error: some packages failed to install:
bio-0.5.1 failed during the building phase. The exception was:
ExitFailure 1
Test log
No test log was submitted for this report.