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BaselAbujamous / clust

Automatic and optimised consensus clustering of one or more heterogeneous datasets
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ValueError: invalid literal for float() #6

Closed pixie-bioinfo closed 6 years ago

pixie-bioinfo commented 6 years ago

Hello,

I am trying to run the program using $ clust path_to_directory

its giving these errors:

Traceback (most recent call last): File "/usr/local/bin/clust", line 11, in sys.exit(main()) File "/usr/local/lib/python2.7/dist-packages/clust/main.py", line 88, in main args.np, args.optimisation, args.q3s, args.deterministic) File "/usr/local/lib/python2.7/dist-packages/clust/clustpipeline.py", line 73, in clustpipeline returnSkipped=True) File "/usr/local/lib/python2.7/dist-packages/clust/scripts/io.py", line 28, in readDatasetsFromDirectory datafilesread = readDataFromFiles(datafileswithpath, delimiter, float, skiprows, skipcolumns, returnSkipped) File "/usr/local/lib/python2.7/dist-packages/clust/scripts/io.py", line 154, in readDataFromFiles usecols=range(skipcolumns, ncols), ndmin=2, comments=comm) File "/usr/lib/python2.7/dist-packages/numpy/lib/npyio.py", line 848, in loadtxt items = [conv(val) for (conv, val) in zip(converters, vals)] ValueError: invalid literal for float(): 1,7.591893546,7.255723111,6.52040516,6.614578794,7.818629699,7.503905326,6.817377628,6.302704563,6.106799149,7.484905097,7.426335129,6.274657542,6.087165531,6.139690166,7.630860516,7.692840101,7.22647

Kindly help!

BaselAbujamous commented 6 years ago

Hi

VERSION UPDATED (v.1.6.0)!

I believe that the problem is that your data is comma delimited (commas separate between values in the line). Clust assumes they are TAB delimited. I have updated clust to accept files with any mixture of these delimiters:

TAB, space, comma, semicolon

The new version (1.6.0) should work on your data as it is. Otherwise, the older version (1.5.0) should work if you replace all commas in your data with TABs. "Pip install" will automatically install the newest version (if it does not, it would be fetching the older version from the cache, so try the --no-cache-dir option with the pip install command to force it to get the newest version).

Please let me know if the new version solves your problem.

Good luck. Base

pixie-bioinfo commented 6 years ago

Thanks, its working fine now .