PermissionError: [Errno 13] Permission denied: 'convert'

[Segun Christopher Jung]

Hello,
Could you comment on the error? I was playing with the toy example in centos 7 and below is the full message.

P-values converged with PearsonR of 0.9991 across 85 genes.
Total runtime over all models: 6.31 (min)
Traceback (most recent call last):
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/gene_outlier_detection/main.py", line 121, in
cli()
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 764, in call
return self.main(*args, **kwargs)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 717, in main
rv = self.invoke(ctx)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 956, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 555, in invoke
return callback(*args, **kwargs)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/gene_outlier_detection/main.py", line 117, in cli
run(opts)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/gene_outlier_detection/main.py", line 74, in run
m.save_traceplot()
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/gene_outlier_detection/lib.py", line 353, in save_traceplot
pm.traceplot(self.trace, var_names=varnames)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/pymc3/plots/init.py", line 37, in wrapped
return func(*args, **kwargs)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/pymc3/plots/init.py", line 55, in traceplot
return az.plot_trace(*args, *kwargs)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/arviz/plots/traceplot.py", line 237, in plot_trace
plot = get_plotting_function("plot_trace", "traceplot", backend)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/arviz/plots/plot_utils.py", line 538, in get_plotting_function
backend=backend, plot_module=plot_module
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/importlib/init.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "", line 994, in _gcd_import
File "", line 971, in _find_and_load
File "", line 941, in _find_and_load_unlocked
File "", line 219, in _call_with_frames_removed
File "", line 994, in _gcd_import
File "", line 971, in _find_and_load
File "", line 955, in _find_and_load_unlocked
File "", line 665, in _load_unlocked
File "", line 678, in exec_module
File "", line 219, in _call_with_frames_removed
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/arviz/plots/backends/matplotlib/init.py", line 124, in
from .ppcplot import plot_ppc
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/arviz/plots/backends/matplotlib/ppcplot.py", line 7, in
from matplotlib import animation, get_backend
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/animation.py", line 737, in
class ImageMagickWriter(ImageMagickBase, MovieWriter):
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/animation.py", line 120, in wrapper
if writerClass.isAvailable():
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/animation.py", line 730, in isAvailable
return super().isAvailable()
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/animation.py", line 427, in isAvailable
return shutil.which(cls.bin_path()) is not None
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/animation.py", line 724, in bin_path
binpath = mpl._get_executable_info('magick').executable
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/init.py", line 384, in _get_executable_info
return impl([path, "--version"], r"^Version: ImageMagick (\S)")
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/matplotlib/init.py", line 324, in impl
args, stderr=subprocess.STDOUT, universal_newlines=True)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/subprocess.py", line 336, in check_output
**kwargs).stdout
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/subprocess.py", line 403, in run
with Popen(*popenargs, **kwargs) as process:
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/subprocess.py", line 709, in init
restore_signals, start_new_session)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/subprocess.py", line 1344, in _execute_child
raise child_exception_type(errno_num, err_msg, err_filename)
PermissionError: [Errno 13] Permission denied: 'convert'
Traceback (most recent call last):
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/bin/outlier-detection", line 10, in
sys.exit(cli())
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 764, in call
return self.main(*args, **kwargs)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 717, in main
rv = self.invoke(ctx)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 956, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/click/core.py", line 555, in invoke
return callback(*args, **kwargs)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/gene_outlier_detection/meta_runner.py", line 88, in cli
subprocess.check_call(parameters)
File "/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/subprocess.py", line 291, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['python', '/isilon/RnD/bcbio-tool-data-dev/anaconda/lib/python3.6/site-packages/gene_outlier_detection/main.py', '-s', 'data/tumor.hd 5', '-b', 'data/gtex.hd5', '-n', 'TCGA-OR-A5KV-01', '-o', './', '-g', 'tissue', '-c', '5', '-nbg', '5', '-m', '200', '-ntg', '50', '-p', '0.99', '--tune', '500', '-l', 'data/ drug-genes.txt']' returned non-zero exit status 1.