Hi Markus, Those changes were made by me and Oleg. I just tested a fresh installation of phenix-dev-2407-intel-linux-2.6-centos5 which is built with cctbx_project revision 24442. The test of cctbx_project/cctbx/regression/tst_grm_pickling.py passed without problems. I'm not aware of why this test is failing on dials after installation. Since the test is to do with the phenix restraints manager perhaps this test is not critical to dials. Perhaps the phenix restraints manager code together with this test should be moved into the phenix repository but that is not my call. Rob -----Original Message----- From: [email protected] Sent: Friday, May 13, 2016 20:00 To: [email protected] Subject: cctbxbb Digest, Vol 86, Issue 7 Message: 2 Date: Fri, 13 May 2016 09:47:18 +0000 From: To: Subject: [cctbxbb] The curious incident of the test at install time Message-ID: <415F7F573406BB498256C68158D45674612998A2@EXCHMBX01.fed.cclrc.ac.uk> Content-Type: text/plain; charset=iso-8859-1 Hi everyone, we have observed the test cctbx_project/cctbx/regression/tst_grm_pickling.py to be failing, however only on an installation installed from the installer. It appears to run successfully on our bootstrapped developer build. I presume that the test requires some external data that we do not distribute? The relevant change occurred between r24437 and r24441, and is almost certainly r24439, which enabled the failing bit of the test. Stacktrace below. -Markus $ libtbx.python /dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py Time pickling/unpickling: 0.0187, 0.0097 Traceback (most recent call last): File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py", line 198, in <module> exercise_all(sys.argv[1:]) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py", line 195, in exercise_all test_nucleic_acid(mon_lib_srv, ener_lib) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py", line 177, in test_nucleic_acid log=null_out()) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 5455, in run log=log) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 5005, in __init__ restraints_loading_flags=restraints_loading_flags, File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 2956, in __init__ log=log, File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 2343, in __init__ m_j=mm) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 1568, in get_lib_link return mon_lib_srv.link_link_id_dict["rna3p"] KeyError: 'rna3p' -- This e-mail and any attachments may contain confidential, copyright and or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorised recipient of the addressee please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to the e-mail. Any opinions expressed within this e-mail are those of the individual and not necessarily of Diamond Light Source Ltd. Diamond Light Source Ltd. cannot guarantee that this e-mail or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. Diamond Light Source Limited (company no. 4375679). Registered in England and Wales with its registered office at Diamond House, Harwell Science and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom ------------------------------ Message: 3 Date: Fri, 13 May 2016 09:50:03 +0000 From: To: Subject: Re: [cctbxbb] The curious incident of the test at install time Message-ID: <13999B6FC038EB44B067771E3CFBD091BC2E3E7A@EXCHMBX03.fed.cclrc.ac.uk> Content-Type: text/plain; charset="us-ascii" Markus I got this error this morning in the regular update / compile shuffle and it's on my to-nag list, also feel like I have seen this before... Cheerio G -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of [email protected] Sent: 13 May 2016 10:47 To: [email protected] Subject: [cctbxbb] The curious incident of the test at install time Hi everyone, we have observed the test cctbx_project/cctbx/regression/tst_grm_pickling.py to be failing, however only on an installation installed from the installer. It appears to run successfully on our bootstrapped developer build. I presume that the test requires some external data that we do not distribute? The relevant change occurred between r24437 and r24441, and is almost certainly r24439, which enabled the failing bit of the test. Stacktrace below. -Markus $ libtbx.python /dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py Time pickling/unpickling: 0.0187, 0.0097 Traceback (most recent call last): File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py", line 198, in <module> exercise_all(sys.argv[1:]) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py", line 195, in exercise_all test_nucleic_acid(mon_lib_srv, ener_lib) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/cctbx/regression/tst_grm_pickling.py", line 177, in test_nucleic_acid log=null_out()) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 5455, in run log=log) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 5005, in __init__ restraints_loading_flags=restraints_loading_flags, File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 2956, in __init__ log=log, File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 2343, in __init__ m_j=mm) File "/dls/science/groups/scisoft/DIALS/CD/nightly/dials-dev20160513/modules/cctbx_project/mmtbx/monomer_library/pdb_interpretation.py", line 1568, in get_lib_link return mon_lib_srv.link_link_id_dict["rna3p"] KeyError: 'rna3p' -- This e-mail and any attachments may contain confidential, copyright and or privileged material, and are for the use of the intended addressee only. If you are not the intended addressee or an authorised recipient of the addressee please notify us of receipt by returning the e-mail and do not use, copy, retain, distribute or disclose the information in or attached to the e-mail. Any opinions expressed within this e-mail are those of the individual and not necessarily of Diamond Light Source Ltd. Diamond Light Source Ltd. cannot guarantee that this e-mail or any attachments are free from viruses and we cannot accept liability for any damage which you may sustain as a result of software viruses which may be transmitted in or with the message. Diamond Light Source Limited (company no. 4375679). Registered in England and Wales with its registered office at Diamond House, Harwell Science and Innovation Campus, Didcot, Oxfordshire, OX11 0DE, United Kingdom _______________________________________________ cctbxbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/cctbxbb ------------------------------ _______________________________________________ cctbxbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/cctbxbb End of cctbxbb Digest, Vol 86, Issue 7 **************************************