I'm a Galaxy and Python newbie and I'm working on project that desires
to upload files from a directory to the Galaxy server. We'd like to
physically copy the files rather than maintain references to them.
I'm starting by following the examples in scripts/api/README. All the
display and library_create_library examples work. However, the
library_upload_from_import_dir fails. In my universe...ini,
library_import_dir is defined to be /home/dgeorge/galaxy/import and
there is a bed directory under that with a short file, bed1.bed in the
correct format. I'm not sure what to provide for the last parameter,
the dbkey - maybe that's my problem?
c6ca0ddb55be603a10e891fff2e902c3 bed bed hg19
And I get the error:
Exception happened during processing of request from ('127.0.0.1',
Traceback (most recent call last):
server.py", line 1053, in process_request_in_thread
File "/usr/lib/python2.6/SocketServer.py", line 322, in finish_request
self.RequestHandlerClass(request, client_address, self)
File "/usr/lib/python2.6/SocketServer.py", line 618, in __init__
File "/usr/lib/python2.6/SocketServer.py", line 661, in finish
File "/usr/lib/python2.6/socket.py", line 297, in flush
self._sock.sendall(buffer(data, write_offset, buffer_size))
error: [Errno 32] Broken pipe
Any ideas or suggestions?
Staff Software Engineer
25861 Industrial Blvd.
Hayward, CA 94545
Email: dgeo...@illumina.com <mailto:dgeo...@illumina.com>
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