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Bug #2939

open

Appion Developers Conference Call Notes

Added by Clint Potter about 10 years ago. Updated about 10 years ago.

Status:
New
Priority:
Normal
Assignee:
-
Category:
-
Target version:
-
Start date:
09/24/2014
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 3.1.0
Show in known bugs:
No
Workaround:

Description

No


Related issues 14 (5 open9 closed)

Related to Appion - Task #2976: Upload public dataset to EMPIARClosedSargis Dallakyan11/11/2014

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Related to Appion - Bug #2930: zero degree particles are not centeredClosedNeil Voss09/16/2014

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Related to Appion - Bug #2840: Remove EMAN1 functions from AppionAssignedScott Stagg07/15/2014

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Related to Appion - Bug #2981: Make a highpass filter for AppionIn Code ReviewAnchi Cheng11/19/2014

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Related to Appion - Feature #2836: bake appion processing recipesAssignedNeil Voss07/14/2014

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Related to Appion - Feature #2834: Protomo alignment launching and assessment via AppionClosedAlex Noble07/14/2014

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Related to Appion - Feature #2841: Create a basic appion layout form for creating a new gui pageClosedDmitry Lyumkis07/15/2014

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Related to Appion - Feature #2843: Add a gui for uploadExternalRefine.pyClosedAmber Herold07/15/2014

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Related to Appion - Bug #2903: makestack slows to a crawl when making big stacksClosedGabriel Lander08/19/2014

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Related to Appion - Feature #2991: Enable BestDB feature in Appion version of CTFFINDClosedAnchi Cheng12/09/2014

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Related to Appion - Feature #2044: Add Relion single model refinement to appion pipelineWon't Fix or Won't Do Sargis Dallakyan09/13/2012

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Related to Appion - Bug #2988: tiltalign issuesAssignedNeil Voss12/08/2014

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Related to Appion - Bug #2980: Should be able to run as MPI or Single nodeNewAnchi Cheng11/19/2014

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Related to Appion - Feature #2869: Add an option to cluster parameters form to select which queue to submit a job toClosedSargis Dallakyan07/28/2014

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Actions #1

Updated by Clint Potter about 10 years ago

9/24/14 Appion Developers Conference Call Notes

Issues #2880,2873 CL2D Broken. Raw particles don’t correspond to classes. This is critical. Anchi, Sargis will look at. Neil says this may have something to do with counting of classnum in the code.

Issue #2044 Relion uploader. AMI will get the Yong Zhi and Jana to test the code

SGE (Sun Grid Engine) Scheduler. Dmitry setting up Appion at Salk and they will use this job scheduler. Amber had some ideas on what file needs to be created. Dmitry will create an issue.

#2912 Leginon RCT node is crashing. This is an urgent bug for Scott as he has a vistor coming that will use RCT. Something to do with timing call in libcv. He fixed this by commenting out delay. Andres Leschziner has new algorithm and code for RCT/OTR algorithm that they have incorporated in Leginon. AMI will see if this can get added to the trunk.

#2930 RCT issue. Zero degree tilt is not centered in stack. This has crept in over past few years. Neil will look at.

#2839 GUI for launching ISAC. Amber will note details in issue. Amber will change Neil's code to make this work for now.

#2503 Phasor changes. Agreed that this was a closed issue.

#2834 Protomo integration. Alex will update the issue.

#2841 Launcher to upload reconstructions. Dmitry will test.

Actions #3

Updated by Neil Voss about 10 years ago

  • Related to Task #2976: Upload public dataset to EMPIAR added
Actions #4

Updated by Neil Voss about 10 years ago

  • Related to Bug #2930: zero degree particles are not centered added
Actions #5

Updated by Neil Voss almost 10 years ago

  • Related to Bug #2840: Remove EMAN1 functions from Appion added
Actions #6

Updated by Neil Voss almost 10 years ago

  • Related to Bug #2981: Make a highpass filter for Appion added
Actions #7

Updated by Neil Voss almost 10 years ago

Actions #8

Updated by Neil Voss almost 10 years ago

  • Related to Feature #2834: Protomo alignment launching and assessment via Appion added
Actions #9

Updated by Neil Voss almost 10 years ago

  • Related to Feature #2841: Create a basic appion layout form for creating a new gui page added
Actions #10

Updated by Neil Voss almost 10 years ago

  • Related to Feature #2843: Add a gui for uploadExternalRefine.py added
Actions #11

Updated by Neil Voss almost 10 years ago

  • Related to Bug #2903: makestack slows to a crawl when making big stacks added
Actions #12

Updated by Neil Voss almost 10 years ago

  • Related to Feature #2991: Enable BestDB feature in Appion version of CTFFIND added
Actions #13

Updated by Neil Voss almost 10 years ago

  • Related to Feature #2044: Add Relion single model refinement to appion pipeline added
Actions #14

Updated by Neil Voss almost 10 years ago

  • Related to Bug #2988: tiltalign issues added
Actions #15

Updated by Neil Voss over 9 years ago

  • Related to Bug #2980: Should be able to run as MPI or Single node added
Actions #16

Updated by Neil Voss over 9 years ago

  • Related to Feature #2869: Add an option to cluster parameters form to select which queue to submit a job to added
Actions

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