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Appion Known Bugs

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# Status Subject Priority Workaround
184 New equalizeStack fails on large stacks Low Actions
20 New Cannot create template from Spider Reference-free alignment Low Actions
3809 New When users are identified in the path, upload image is put into base leginon directory, not user directory if leginon.cfg is not set in user home directory Normal

user must have leginon.cfg defined.

 Actions
1439 New Upload model job stalls during Chimera "ac cc" command for large virus Normal

In appionlib/apChimera.py, comment out lines 210 and 215 which call "runChimeraScript(chimsnappath, xvfb=xvfb)".

 Actions
665 New Importing a FREALIGN reconstruction for a new FREALIGN reconstruction modifies the Euler angles Normal Actions
598 New Particle selection in stack does not work with Safari Normal Actions
414 New substack.py can get a "word too long" error if the particle list gets long. Normal Actions
5576 Assigned motioncor2_ucsf saves both gpuid and gpuids as run parameters Normal Actions
292 Assigned login doesn't work when base_path is the document root. Normal Actions
3559 In Test Thon ring contrast is lower on new ctfdisplay 2D plot Normal Actions
399 In Test handedness flip in prepFrealign High Actions
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