Hi,
I was trying to upload a 43Gb BAM file to Galaxy when I encountered
this problem.
I am new to galaxy and python.
I have tried uploading files in other formats and they have worked fine.
I am using galaxy as a local installation and appreciate any thoughts
on how to fix this.
Thanks
Sukha
===========
Traceback (most recent call last):
File "/Data/galaxy/galaxy-dist/tools/data_source/upload.py", line
384, in <module>
__main__()
File "/Data/galaxy/galaxy-dist/tools/data_source/upload.py", line
373, in __main__
add_file( dataset, registry, json_file, output_path )
File "/Data/galaxy/galaxy-dist/tools/data_source/upload.py", line
312, in add_file
if link_data_only == 'copy_files' and
datatype.dataset_content_needs_grooming( output_path ):
File "/Data/galaxy/galaxy-dist/lib/galaxy/datatypes/binary.py", line
113, in dataset_content_needs_grooming
version = self._get_samtools_version()
File "/Data/galaxy/galaxy-dist/lib/galaxy/datatypes/binary.py", line
97, in _get_samtools_version
output = subprocess.Popen( [ 'samtools' ], stderr=subprocess.PIPE,
stdout=subprocess.PIPE ).communicate()[1]
File "/Data/galaxy/Python-2.7.1/Lib/subprocess.py", line 672, in __init__
errread, errwrite)
File "/Data/galaxy/Python-2.7.1/Lib/subprocess.py", line 1202, in
_execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
==============
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