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BioHaskell / hPDB

PDB parser in Haskell
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Installation failure #3

Closed gazalk closed 5 years ago

gazalk commented 6 years ago

Hi,

I'm a novice for Haskell, so I'm not familiar with the procedures. Could you please help me with the following error. I'm making installation on Ubuntu 16.04 with GHC version 7.10.3.

`[53 of 60] Compiling Bio.PDB.Structure.Neighbours ( Bio/PDB/Structure/Neighbours.hs, dist/build/Bio/PDB/Structure/Neighbours.o )

Bio/PDB/Structure/Neighbours.hs:22:43: Couldn't match type ‘Vector3’ with ‘linear-1.20.7:Linear.V3.V3 Double’ Expected type: Oct.Vector3 Actual type: Vector3 In the expression: cvec In the expression: (cvec, at)

Bio/PDB/Structure/Neighbours.hs:30:16: Couldn't match type ‘linear-1.20.7:Linear.V3.V3 Double’ with ‘Vector3’ Expected type: AtomOctree -> Double -> Vector3 -> [(Vector3, Atom)] Actual type: Oct.Octree Atom -> Double -> linear-1.20.7:Linear.V3.V3 Double -> [(linear-1.20.7:Linear.V3.V3 Double, Atom)] In the expression: Oct.withinRange In an equation for ‘findInRadius’: findInRadius = Oct.withinRange

Bio/PDB/Structure/Neighbours.hs:34:16: Couldn't match type ‘linear-1.20.7:Linear.V3.V3 Double’ with ‘Vector3’ Expected type: AtomOctree -> Vector3 -> Maybe (Vector3, Atom) Actual type: Oct.Octree Atom -> linear-1.20.7:Linear.V3.V3 Double -> Maybe (linear-1.20.7:Linear.V3.V3 Double, Atom) In the expression: Oct.nearest In an equation for ‘findNearest’: findNearest = Oct.nearest cabal: Error: some packages failed to install: hPDB-1.2.0.10 failed during the building phase. The exception was: ExitFailure 1 hPDB-examples-1.2.0.8 depends on hPDB-1.2.0.10 which failed to install. `

mgajda commented 6 years ago

I have added stack.yml as known working configuration. Now stack install will work. Unfortunately, I am unable to reproduce your error. Can we share the tmate session or something to let me see?

ghost commented 5 years ago

@gazalk I can confirm that a clean clone and stack setup and stack build successfully builds for me.

Please respond or close this issue if you are no longer interested. I hope you did find some resolution to the work you were attempting, regardless of whether hPDB helped.

gazalk commented 5 years ago

After this commit: https://github.com/BioHaskell/hPDB/commit/30c490c7558498f0388250b6a40e988907c171e8, there were no errors anymore. It does give a proper installation for me now.