Hi All, I am attempting to do a local install of Galaxy using the galaxy-dist source. While testing some of the the tools I have run into a problem with the laj Pairwise Alignment Viewer tool. I have also tested this on the test server http://test.g2.bx.psu.edu/ and I am getting a very similar error. I have used blastz to create a test lav file. On http://test.g2.bx.psu.edu/ the error is: Traceback (most recent call last): File "/var/opt/galaxy/g2test/galaxy_test/lib/galaxy/jobs/runners/pbs.py", line 514, in finish_job pbs_job_state.job_wrapper.finish( stdout, stderr ) File "/var/opt/galaxy/g2test/galaxy_test/lib/galaxy/jobs/__init__.py", line 630, in finish tool=self.tool, stdout=stdout, stderr=stderr ) File "/var/opt/galaxy/g2test/galaxy_test/lib/galaxy/tools/__init__.py", line 1664, in call_hook return code( *args, **kwargs ) File "./tools/visualization/LAJ_code.py", line 24, in exec_after_process elif name == "repeatfile" and data.state == data.states.OK and data.has_data(): AttributeError: ('E', 'r', 'r', 'o', 'r', ' ', 'i', 'n', ' ', "'", 'L', 'A', 'J', "'", ' ', 'h', 'o', 'o', 'k', ' ', "'", 'e', 'x', 'e', 'c', '_', 'a', 'f', 't', 'e', 'r', '_', 'p', 'r', 'o', 'c', 'e', 's', 's', "'", ',', ' ', 'o', 'r', 'i', 'g', 'i', 'n', 'a', 'l', ' ', 'm', 'e', 's', 's', 'a', 'g', 'e', ':', ' ', "'", 'N', 'o', 'n', 'e', 'T', 'y', 'p', 'e', "'", ' ', 'o', 'b', 'j', 'e', 'c', 't', ' ', 'h', 'a', 's', ' ', 'n', 'o', ' ', 'a', 't', 't', 'r', 'i', 'b', 'u', 't', 'e', ' ', "'", 's', 't', 'a', 't', 'e', "'") While on my local install it is : Traceback (most recent call last): File "/storage/galaxy-dist/lib/galaxy/jobs/runners/local.py", line 125, in run_job job_wrapper.finish( stdout, stderr ) File "/storage/galaxy-dist/lib/galaxy/jobs/__init__.py", line 630, in finish tool=self.tool, stdout=stdout, stderr=stderr ) File "/storage/galaxy-dist/lib/galaxy/tools/__init__.py", line 1632, in call_hook return code( *args, **kwargs ) File "./tools/visualization/LAJ_code.py", line 24, in exec_after_process elif name == "repeatfile" and data.state == data.states.OK and data.has_data(): AttributeError: ('E', 'r', 'r', 'o', 'r', ' ', 'i', 'n', ' ', "'", 'L', 'A', 'J', "'", ' ', 'h', 'o', 'o', 'k', ' ', "'", 'e', 'x', 'e', 'c', '_', 'a', 'f', 't', 'e', 'r', '_', 'p', 'r', 'o', 'c', 'e', 's', 's', "'", ',', ' ', 'o', 'r', 'i', 'g', 'i', 'n', 'a', 'l', ' ', 'm', 'e', 's', 's', 'a', 'g', 'e', ':', ' ', "'", 'N', 'o', 'n', 'e', 'T', 'y', 'p', 'e', "'", ' ', 'o', 'b', 'j', 'e', 'c', 't', ' ', 'h', 'a', 's', ' ', 'n', 'o', ' ', 'a', 't', 't', 'r', 'i', 'b', 'u', 't', 'e', ' ', "'", 's', 't', 'a', 't', 'e', "'") Any help would be appreciated, Thanks, -- Jason Ellul Bioinformatician Cancer Research Division Peter MacCallum Cancer Centre TEL: +61 3 9656 1512 FAX: +61 3 9656 1411 EMAIL: jason.ellul@petermac.org Address: St Andrew's Place East Melbourne Victoria 3002 Australia Postal Address: Locked Bag No. 1 A'Beckett St., Victoria, 8006, Australia This email (including any attachments or links) may contain confidential and/or legally privileged information and is intended only to be read or used by the addressee. If you are not the intended addressee, any use, distribution, disclosure or copying of this email is strictly prohibited. Confidentiality and legal privilege attached to this email (including any attachments) are not waived or lost by reason of its mistaken delivery to you. If you have received this email in error, please delete it and notify us immediately by telephone or email. Peter MacCallum Cancer Centre provides no guarantee that this transmission is free of virus or that it has not been intercepted or altered and will not be liable for any delay in its receipt.