search

soedinglab / b-lore

Bayesian multiple logistic regression for GWAS meta-analysis
GNU General Public License v3.0
16 stars 1 forks source link

Error in Meta-analysis #3

Open haukethomsen opened 1 year ago

haukethomsen commented 1 year ago

After the previous error had been resolved, the new version has been downloaded. Unfortunately, the following issue came up in running the meta-analysis: Calculating summary statistics Saving results Reading summary statistics from output/pop1reg Reading summary statistics from output/pop2reg Reading summary statistics from output/pop3reg Combining 3 studies Locus 1 / 20 Locus 2 / 20 Locus 3 / 20 Locus 4 / 20 Locus 5 / 20 Locus 6 / 20 Locus 7 / 20 Locus 8 / 20 Locus 9 / 20 Locus 10 / 20 Locus 11 / 20 Locus 12 / 20 Locus 13 / 20 Locus 14 / 20 Locus 15 / 20 Locus 16 / 20 Locus 17 / 20 Locus 18 / 20 Locus 19 / 20 Locus 20 / 20 Traceback (most recent call last): File "../bin/../blore/main.py", line 289, in meta.optimize_hyperparameters(statdir, locusnamesfile, featurefiles, outdir, file_prefix, opts.zmax, opts.muvar, mparams) File "/Users/hthomsen/Software/b-lore/blore/meta.py", line 63, in optimize_hyperparameters emp_bayes.fit() File "/Users/hthomsen/Software/b-lore/blore/inference/empirical_bayes.py", line 96, in fit self._callback_zstates(params) File "/Users/hthomsen/Software/b-lore/blore/inference/empirical_bayes.py", line 186, in _callback_zstates self._global_zstates = [zstatespy.create(self._nsnps[i], File "/Users/hthomsen/Software/b-lore/blore/inference/empirical_bayes.py", line 186, in self._global_zstates = [zstatespy.create(self._nsnps[i], File "/Users/hthomsen/Software/b-lore/blore/inference/zstatespy.py", line 80, in create lib = np.ctypeslib.load_library('../lib/zstates.so', _path) File "/Users/hthomsen/miniconda3/lib/python3.8/site-packages/numpy/ctypeslib.py", line 163, in load_library raise OSError("no file with expected extension") OSError: no file with expected extension /Users/hthomsen/Software/b-lore/example$

banskt commented 1 year ago

This is an error related to the installation of the package. Did you compile the C libraries using make as mentioned in "Installation" section?

haukethomsen commented 1 year ago

C libraries were compiled, but the compiler had to be changed in order to meet an incompatible architecture (error was like: have 'arm64', need 'x86_64'). Now, it runs! Thanks for the hint.