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Cannot import tomograms.star in RELION-5 #1024

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rdrighetto opened this issue Nov 8, 2023 · 0 comments
Open

Cannot import tomograms.star in RELION-5 #1024

rdrighetto opened this issue Nov 8, 2023 · 0 comments

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@rdrighetto
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Dear RELION team,

I just did a fresh install of RELION-5. To test the tomography capabilities, I wanted to import a tomograms.star file and some particle coordinates that I have used before with RELION-4 without problems. That is, using tilt series that have been aligned and reconstructed in IMOD before, not processing them from scratch in RELION-5 (will test that too!).

So I did:

relion --tomo &
Tomo import --> fill details in the "General" tab --> fill details in the "Tomograms" tab --> Run the job
RELION crashes with the following error message:

ERROR: cannot find dose in the defined joboptions!
in: /scicore/home/engel0006/GROUP/pool-engel/soft/relion/ver5.0/src/gui_jobwindow.cpp, line 305
ERROR: 
Stopping now...
=== Backtrace  ===
relion(_ZN11RelionErrorC1ERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES7_l+0x69) [0x484129]
relion(_ZN9JobWindow11updateMyJobEv+0x3d1) [0x4a91e1]
relion(_ZN13GuiMainWindow19loadJobFromPipelineEi+0x100) [0x4944d0]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(_ZN9Fl_Widget11do_callbackEPS_Pv+0x33) [0x7f0301335843]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(_ZN9Fl_Button6handleEi+0x240) [0x7f03012e50e0]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(+0x45d03) [0x7f03012dcd03]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(_ZN2Fl7handle_EiP9Fl_Window+0x22f) [0x7f03012dea0f]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(_Z9fl_handleRK7_XEvent+0x773) [0x7f030133c8c3]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(+0xa7052) [0x7f030133e052]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(+0xa7339) [0x7f030133e339]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(_ZN2Fl4waitEd+0x13d) [0x7f03012de48d]
/scicore/soft/apps/FLTK/1.3.6-GCCcore-10.3.0/lib/libfltk.so.1.3(_ZN2Fl3runEv+0x21) [0x7f03012de541]
relion(main+0x833) [0x466d93]
/lib64/libc.so.6(__libc_start_main+0xf5) [0x7f02fa606555]
relion() [0x47c2fd]
==================
ERROR: 
Stopping now...

The dose information is supplied in the _rlnTomoImportFractionalDose column of the tomograms.star file. Has this changed in RELION-5, or how can we supply the dose information when importing data like this?

Thank you!

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