09/11/2019 12:00:23.88 09/11/2019 12:00:24.27 C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty dist /MIR /COPYALL 1>nul ) & rmdir /S /Q dist\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty tests /MIR /COPYALL 1>nul ) & rmdir /S /Q tests\ & ) C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty doc /MIR /COPYALL 1>nul ) & rmdir /S /Q doc\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty tmp /MIR /COPYALL 1>nul ) & rmdir /S /Q tmp\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty base /MIR /COPYALL 1>nul ) & rmdir /S /Q base\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty base_tmp /MIR /COPYALL 1>nul ) & rmdir /S /Q base_tmp\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty build /MIR /COPYALL 1>nul ) & rmdir /S /Q build\ & ) The system cannot find the file specified. C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current>((ROBOCOPY empty conda_base /MIR /COPYALL 1>nul ) & rmdir /S /Q conda_base\ & ) The system cannot find the file specified. Performing actions: cleanup hot update ===== Running in .: deleting dist, tests, doc, tmp, base, base_tmp, build, conda_base ===== Downloading http://cci.lbl.gov/repositories/annlib.gz: 0.5 MB [0%.........20%.........40%.........60%.........80%.........100%] ===== Running in modules: extracting files from annlib.gz ===== Downloading http://cci.lbl.gov/repositories/scons.gz: 0.6 MB [0%.........20%.........40%.........60%.........80%.........100%] ===== Running in modules: extracting files from scons.gz ===== Downloading http://cci.lbl.gov/repositories/ccp4io.gz: 1.4 MB [0%.........20%.........40%.........60%.........80%.........100%] ===== Running in modules: extracting files from ccp4io.gz ===== Downloading http://cci.lbl.gov/repositories/eigen.gz: 1.5 MB [0%.........20%.........40%.........60%.........80%.........100%] ===== Running in modules: extracting files from eigen.gz ===== Downloading http://cci.lbl.gov/repositories/clipper.gz: 0.6 MB [0%.........20%.........40%.........60%.........80%.........100%] Already up to date. Current branch master is up to date. From https://github.com/cctbx/cctbx_project 4417fc1c5..14ae5b575 master -> origin/master 068dbb3ee..3d41ba03d LS49_exp -> origin/LS49_exp + a10cc2580...064232979 conda_compiler -> origin/conda_compiler (forced update) 01dde832c..b2bb53a19 diffBragg -> origin/diffBragg Updating 4417fc1c5..14ae5b575 Fast-forward cctbx/maptbx/boost_python/maptbx_ext.cpp | 34 +- cctbx/maptbx/utils.h | 92 +- crys3d/hklview/NGL_HKLviewerGui.py | 187 +++-- crys3d/hklview/cmdlineframes.py | 22 +- iota/__init__.py | 4 +- iota/components/iota_base.py | 2 +- iota/components/iota_threads.py | 24 +- iota/components/iota_ui_frames.py | 32 +- iota/doc/NOTES.txt | 20 +- mmtbx/maps/mtriage.py | 5 +- mmtbx/regression/tst_rama_z_01.py | 25 +- xfel/command_line/cxi_mpi_submit.py | 222 ++--- xfel/command_line/striping.py | 83 +- .../application/filter/reflection_filter.py | 3 +- xfel/merging/application/model/crystal_model.py | 9 +- xfel/merging/application/phil/phil.py | 6 + xfel/swissfel/jf16m_cxigeom2nexus.py | 54 +- xfel/ui/__init__.py | 2 + xfel/ui/components/submission_tracker.py | 107 ++- xfel/ui/components/xfel_gui_controls.py | 36 +- xfel/ui/components/xfel_gui_dialogs.py | 272 +++++- xfel/ui/components/xfel_gui_init.py | 569 +++++++++++-- xfel/ui/db/__init__.py | 9 +- xfel/ui/db/cfgs/submit_xfel_merge.phil | 25 + xfel/ui/db/cfgs/submit_xfel_process.phil | 3 + xfel/ui/db/dataset.py | 84 ++ xfel/ui/db/frame_logging.py | 2 +- xfel/ui/db/job.py | 926 +++++++++++++++------ xfel/ui/db/merging_log_scraper.py | 219 +++++ xfel/ui/db/schema.sql | 140 +++- xfel/ui/db/task.py | 45 + xfel/ui/db/xfel_db.py | 170 +++- xfel/util/mp.py | 183 +++- xfel/util/weather.py | 13 +- 34 files changed, 2904 insertions(+), 725 deletions(-) create mode 100644 xfel/ui/db/cfgs/submit_xfel_merge.phil create mode 100644 xfel/ui/db/dataset.py create mode 100644 xfel/ui/db/merging_log_scraper.py create mode 100644 xfel/ui/db/task.py Current branch master is up to date. Already up to date. Current branch master is up to date. ===== Running in modules: extracting files from clipper.gz ===== Running in modules\cbflib: git pull --rebase ===== Running in modules\cctbx_project: git pull --rebase ===== Running in modules\annlib_adaptbx: git pull --rebase ===== Downloading http://cci.lbl.gov/repositories/tntbx.gz: 38.0 kB [0%.........20%.........40%.........60%.........80%.........100%] From https://github.com/cctbx/dxtbx e4c0d4e..f5829c7 master -> origin/master Updating e4c0d4e..f5829c7 Fast-forward boost_python/imageset_ext.cc | 2 ++ format/boost_python/image_ext.cc | 2 ++ format/boost_python/nexus_ext.cc | 46 ++++++++++++++++++++++++++++++++++------ format/image.h | 34 +++++++++++++++++++++++++++-- format/nexus.py | 44 ++++++++++++++++++++++++++++++++------ imageset.h | 4 ++++ model/experiment_list.py | 4 ++-- tests/test_image_readers.py | 4 ++++ tests/test_imageset.py | 6 ++++-- 9 files changed, 127 insertions(+), 19 deletions(-) Current branch master is up to date. ===== Running in modules: extracting files from tntbx.gz ===== Running in modules\dxtbx: git pull --rebase ===== Downloading http://cci.lbl.gov/repositories/ccp4io_adaptbx.gz: 203.9 kB [0%.........20%.........40%.........60%.........80%.........100%] Already up to date. Current branch master is up to date. ===== Running in modules: extracting files from ccp4io_adaptbx.gz ===== Running in modules\boost: git pull --rebase ===== Downloading http://cci.lbl.gov/repositories/gui_resources.gz: 2.1 MB [0%.........20%.........40%.........60%.........80%.........100%] ===== Running in modules: extracting files from gui_resources.gz removing .pyc files in C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current\modules, walk? True removed 0 files Bootstrap success: cleanup, hot, update 09/11/2019 12:01:23.63 09/11/2019 12:01:23.70 Performing actions: base build Installing base packages using: python modules\cctbx_project\libtbx\auto_build\install_conda.py --builder=cctbx Traceback (most recent call last): File "bootstrap.py", line 2721, in run() File "bootstrap.py", line 2716, in run use_conda=options.use_conda, File "bootstrap.py", line 1119, in __init__ self.add_configure() File "bootstrap.py", line 1753, in add_configure self.python_base = self._get_conda_python() File "bootstrap.py", line 1513, in _get_conda_python m = self._get_conda_manager() File "bootstrap.py", line 1503, in _get_conda_manager check_file=check_file, log=log) File "C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current\modules\cctbx_project\libtbx\auto_build\install_conda.py", line 329, in __init__ env=self.env)) File "C:\Users\phaserbuilder\NightlyBuilds\CCTBXVC2008\x64\Current\modules\cctbx_project\libtbx\auto_build\install_conda.py", line 57, in check_output returncode = subprocess.check_call(command_list, stdout=f, *args, **kwargs) File "C:\Python27amd64\lib\subprocess.py", line 190, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['cmd', '/c', 'C:\\Users\\phaserbuilder\\PhaserTng2\\mc3\\Scripts\\conda.exe', 'info', '--json']' returned non-zero exit status 1 09/11/2019 12:01:28.44