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UCLOrengoGroup / cath-tools

Protein structure comparison tools such as SSAP and SNAP
http://cath-tools.readthedocs.io
GNU General Public License v3.0
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Problem parsing CORA alignment file #43

Closed tonyelewis closed 6 years ago

tonyelewis commented 6 years ago

Using this file: 1.10.287.810__FF_SSG9__1.aln_reps.cora.txt...

setenv PDBDIR /cath/data/v4_0_0/pdb
cath-superpose --cora-aln-infile 1.10.287.810__FF_SSG9__1.aln_reps.cora.txt --pdb-infile $PDBDIR/2bsk --pdb-infile $PDBDIR/2bsk --pdb-infile $PDBDIR/3dxr --pdb-infile $PDBDIR/3cjh --align-regions 'D[2bskA00]:A' --align-regions 'D[2bskF00]:F' --align-regions 'D[3dxrA00]:A' --align-regions 'D[3cjhB00]:B' --sup-to-pymol

...gives...

Cannot read CORA legacy alignment file [bad lexical cast: source type value could not be interpreted as target] : No such file or directory
2017-09-26 17:17:32.687629 [cath-superpose|error  ] Problem building alignment (and spanning tree) : Cannot read CORA legacy alignment file [bad lexical cast: source type value could not be interpreted as target]
sillitoe commented 6 years ago

Could you please bump the release so I can access this fix?

tonyelewis commented 6 years ago

Until I do this, remember that there's a recent executable in my ~/bin.

But, yep, will try to do this soon. And do please feel free to keep pestering me. :)

tonyelewis commented 6 years ago

@sillitoe : I've just released v0.16.0. CentOS6 binaries are on the GitHub release and in the usual place on our system. Travis-CI is currently working on the Ubuntu and MacOS builds.