Seems like an error concerning permissions in your galaxy folders. Try: sudo chmod 777 galaxy-dist/
and then try to upload data again. To: galaxy-...@bx.psu.edu From: liisa.ko...@dnalandmarks.ca Date: Tue, 20 Dec 2011 16:22:02 -0500 Subject: [galaxy-dev] Problem uploading files from filesystem paths Hi, I'm trying to upload data to Data Libraries from filesystems paths as Admin. I get the following error. Any ideas? Thanks in advance, Liisa Traceback (most recent call last): File "/data/Galaxy/galaxy-dist/tools/data_source/upload.py", line 394, in __main__() File "/data/Galaxy/galaxy-dist/tools/data_source/upload.py", line 386, in __main__ add_file( dataset, registry, js Job Standard Error Traceback (most recent call last): File "/data/Galaxy/galaxy-dist/tools/data_source/upload.py", line 394, in __main__() File "/data/Galaxy/galaxy-dist/tools/data_source/upload.py", line 386, in __main__ add_file( dataset, registry, json_file, output_path ) File "/data/Galaxy/galaxy-dist/tools/data_source/upload.py", line 300, in add_file if datatype.dataset_content_needs_grooming( dataset.path ): File "/data/Galaxy/galaxy-dist/lib/galaxy/datatypes/binary.py", line 79, in dataset_content_needs_grooming version = self._get_samtools_version() File "/data/Galaxy/galaxy-dist/lib/galaxy/datatypes/binary.py", line 63, in _get_samtools_version output = subprocess.Popen( [ 'samtools' ], stderr=subprocess.PIPE, stdout=subprocess.PIPE ).communicate()[1] File "/usr/lib64/python2.6/subprocess.py", line 633, in __init__ errread, errwrite) File "/usr/lib64/python2.6/subprocess.py", line 1139, in _execute_child raise child_exception OSError: [Errno 13] Permission denied ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/