hPDB> Bio/PDB/StructureBuilder/Internals.hs:47:72: error:
hPDB> • Couldn't match type ‘s0’ with ‘s’
hPDB> Expected: StateT
hPDB> (BState s0) (ST.ST s) (Structure, Data.Vector.Vector PDBEvent)
hPDB> Actual: StateT
hPDB> (BState s0) (ST.ST s0) (Structure, Data.Vector.Vector PDBEvent)
hPDB> • because type variable ‘s’ would escape its scope
hPDB> This (rigid, skolem) type variable is bound by
hPDB> a type expected by the context:
hPDB> forall s. ST.ST s (Structure, List PDBEvent)
hPDB> at Bio/PDB/StructureBuilder/Internals.hs:(46,41)-(48,88)
hPDB> • In the first argument of ‘evalStateT’, namely ‘parsing’
hPDB> In a stmt of a 'do' block: (s, e) <- evalStateT parsing initial
hPDB> In the second argument of ‘($)’, namely
hPDB> ‘do initial <- initializeState
hPDB> (s, e) <- evalStateT parsing initial
hPDB> return (s :: Structure, e :: List PDBEvent)’
hPDB> • Relevant bindings include
hPDB> initial :: BState s
hPDB> (bound at Bio/PDB/StructureBuilder/Internals.hs:46:44)
hPDB> parsing :: StateT
hPDB> (BState s0) (ST.ST s0) (Structure, Data.Vector.Vector PDBEvent)
hPDB> (bound at Bio/PDB/StructureBuilder/Internals.hs:49:9)
hPDB> |
hPDB> 47 | (s, e) <- State.evalStateT parsing initial
hPDB> | ^^^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:49:71: error:
hPDB> • No instance for (MonadFail (ST.ST s0))
hPDB> arising from a use of ‘parseStep’
hPDB> • In the expression: parseStep ev
hPDB> In the third argument of ‘parsePDBRec’, namely
hPDB> ‘(\ () !ev -> parseStep ev)’
hPDB> In a stmt of a 'do' block:
hPDB> parsePDBRec (BS.pack fname) contents (\ () !ev -> parseStep ev) ()
hPDB> |
hPDB> 49 | where parsing = do parsePDBRec (BS.pack fname) contents (\() !ev -> parseStep ev) ()
hPDB> | ^^^^^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:145:47: error:
hPDB> • No instance for (MonadFail (ST.ST t))
hPDB> arising from a use of ‘finalize’
hPDB> • In a stmt of a 'do' block: rf <- finalize rc
hPDB> In the second argument of ‘($)’, namely
hPDB> ‘do let Just res = r
hPDB> rc <- gets residueContents
hPDB> rf <- finalize rc
hPDB> cc <- gets chainContents
hPDB> ....’
hPDB> In a stmt of a 'do' block:
hPDB> when (isJust r)
hPDB> $ do let Just res = r
hPDB> rc <- gets residueContents
hPDB> rf <- finalize rc
hPDB> cc <- gets chainContents
hPDB> ....
hPDB> |
hPDB> 145 | rf <- L.finalize rc
hPDB> | ^^^^^^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:160:45: error:
hPDB> • No instance for (MonadFail (ST.ST t))
hPDB> arising from a use of ‘finalize’
hPDB> • In a stmt of a 'do' block: l' <- finalize l
hPDB> In the second argument of ‘($)’, namely
hPDB> ‘do l <- gets chainContents
hPDB> l' <- finalize l
hPDB> let Just ch = c
hPDB> ch' = ...
hPDB> m <- gets currentModel
hPDB> ....’
hPDB> In a stmt of a 'do' block:
hPDB> when (isJust c)
hPDB> $ do l <- gets chainContents
hPDB> l' <- finalize l
hPDB> let Just ch = c
hPDB> ch' = ...
hPDB> m <- gets currentModel
hPDB> ....
hPDB> |
hPDB> 160 | l' <- L.finalize l
hPDB> | ^^^^^^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:185:19: error:
hPDB> • No instance for (MonadFail (ST.ST t)) arising from a use of ‘add’
hPDB> • In the first argument of ‘($)’, namely ‘add e’
hPDB> In a stmt of a 'do' block: add e $ anError ln
hPDB> In the expression:
hPDB> do e <- gets errors
hPDB> lnref <- gets lineNo
hPDB> ln <- lift $ readSTRef lnref
hPDB> lift $ modifySTRef lnref (+ 1)
hPDB> ....
hPDB> |
hPDB> 185 | L.add e $ anError ln
hPDB> | ^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:196:40: error:
hPDB> • No instance for (MonadFail (ST.ST t))
hPDB> arising from a use of ‘finalize’
hPDB> • In a stmt of a 'do' block: chs <- finalize mc
hPDB> In the expression:
hPDB> do mc <- gets modelContents
hPDB> chs <- finalize mc
hPDB> let m' = ...
hPDB> sc <- gets structureContents
hPDB> ....
hPDB> In a case alternative:
hPDB> Just m
hPDB> -> do mc <- gets modelContents
hPDB> chs <- finalize mc
hPDB> let m' = ...
hPDB> ....
hPDB> |
hPDB> 196 | chs <- L.finalize mc
hPDB> | ^^^^^^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:208:28: error:
hPDB> • No instance for (MonadFail (ST.ST t))
hPDB> arising from a use of ‘finalize’
hPDB> • In a stmt of a 'do' block: sc' <- finalize sc
hPDB> In the expression:
hPDB> do closeModel
hPDB> sc <- gets structureContents
hPDB> sc' <- finalize sc
hPDB> modify (closeStructure' sc')
hPDB> In an equation for ‘closeStructure’:
hPDB> closeStructure
hPDB> = do closeModel
hPDB> sc <- gets structureContents
hPDB> sc' <- finalize sc
hPDB> ....
hPDB> where
hPDB> closeStructure' sc bstate@(BState {currentStructure = aStructure})
hPDB> = bstate
hPDB> {currentStructure = aStructure {models = sc},
hPDB> structureContents = undefined}
hPDB> |
hPDB> 208 | sc' <- L.finalize sc
hPDB> | ^^^^^^^^^^
hPDB> Bio/PDB/StructureBuilder/Internals.hs:285:25: error:
hPDB> • No instance for (MonadFail (ST.ST t))
hPDB> arising from a use of ‘finalize’
hPDB> • In a stmt of a 'do' block: er' <- finalize er
hPDB> In the expression:
hPDB> do closeStructure
hPDB> st <- gets currentStructure
hPDB> er <- gets errors
hPDB> er' <- finalize er
hPDB> ....
hPDB> In an equation for ‘parseFinish’:
hPDB> parseFinish
hPDB> = do closeStructure
hPDB> st <- gets currentStructure
hPDB> er <- gets errors
hPDB> ....
hPDB> |
hPDB> 285 | er' <- finalize er
hPDB> | ^^^^^^^^
hPDB> [56 of 60] Compiling Bio.PDB.Util.ParFold ( Bio/PDB/Util/ParFold.hs, dist/build/Bio/PDB/Util/ParFold.o, dist/build/Bio/PDB/Util/ParFold.dyn_o )
error: builder for '/nix/store/k2f4yrb2hrynpzxdxqyr7xfkcxj02g10-hPDB-1.5.0.0.drv' failed with exit code 1;
last 10 log lines:
> In an equation for ‘parseFinish’:
> parseFinish
> = do closeStructure
> st <- gets currentStructure
> er <- gets errors
> ....
> |
> 285 | er' <- finalize er
> | ^^^^^^^^
> [56 of 60] Compiling Bio.PDB.Util.ParFold ( Bio/PDB/Util/ParFold.hs, dist/build/Bio/PDB/Util/ParFold.o, dist/build/Bio/PDB/Util/ParFold.dyn_o )
For full logs, run 'nix log /nix/store/k2f4yrb2hrynpzxdxqyr7xfkcxj02g10-hPDB-1.5.0.0.drv'.
locallycompact
commented
1 year ago