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Install Warp on Linux:
conda create -n warp warp -c warpem -c nvidia/label/cuda-11.8.0 -c pytorch -c conda-forge
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Miles Graham
, …
Pranav Shah
14
5:34 AM
Imod vs warp reconstruction - tilt series alignments import query
@miles Could you check in the tomo xml file if the tilt axis angle and the physical angstrom shifts
unread,
Imod vs warp reconstruction - tilt series alignments import query
@miles Could you check in the tomo xml file if the tilt axis angle and the physical angstrom shifts
5:34 AM
Paris Watson
,
Alister Burt
4
Oct 28
Refinement in MCore - Choosing parameters
Congratulations! Great work :-) You can do it but it might be a pain - have to go back and re-export
unread,
Refinement in MCore - Choosing parameters
Congratulations! Great work :-) You can do it but it might be a pain - have to go back and re-export
Oct 28
HUGO MUÑOZ HERNÁNDEZ
, …
Alister Burt
8
Oct 27
MCore failed after a while running
2000 tilt series!!!! Good luck and sorry there isn't an easier method for resuming from crashes -
unread,
MCore failed after a while running
2000 tilt series!!!! Good luck and sorry there isn't an easier method for resuming from crashes -
Oct 27
Dylan Noone
,
Alister Burt
7
Oct 23
Problems with WarpTools ts_aretomo
Works, thanks! On Thursday, 23 October 2025 at 16:57:09 UTC+1 alist...@gmail.com wrote: Sorry,
unread,
Problems with WarpTools ts_aretomo
Works, thanks! On Thursday, 23 October 2025 at 16:57:09 UTC+1 alist...@gmail.com wrote: Sorry,
Oct 23
马卓妍
,
Alister Burt
2
Oct 23
M estimateweights error
Hi Alice, Looks like a bug, sorry about that! We'll fix if we can reproduce locally - you
unread,
M estimateweights error
Hi Alice, Looks like a bug, sorry about that! We'll fix if we can reproduce locally - you
Oct 23
Peng Liu
,
Alister Burt
2
Oct 21
Switching Warp versions and individual image removal
Hi Peng, I recommend reprocessing to avoid potential issues but understand this is a bit of a
unread,
Switching Warp versions and individual image removal
Hi Peng, I recommend reprocessing to avoid potential issues but understand this is a bit of a
Oct 21
Laina Nicole Hall
,
Alister Burt
2
Oct 20
Template matching issue
Hey Laina, Your image hasn't come through so hard to tell what's going on but a few questions
unread,
Template matching issue
Hey Laina, Your image hasn't come through so hard to tell what's going on but a few questions
Oct 20
P C
,
Wanlong Hu
5
Oct 17
peristent error
the new version seems to do much better, with fewer crashes. Thank you. On Tuesday, October 14, 2025
unread,
peristent error
the new version seems to do much better, with fewer crashes. Thank you. On Tuesday, October 14, 2025
Oct 17
Irene Hu
, …
Alister Burt
5
Oct 17
cuFFT error in WarpTools template matching on large tomogram
Hi Alister, Thanks so much for the reply — that makes a lot of sense! I was benchmarking to see
unread,
cuFFT error in WarpTools template matching on large tomogram
Hi Alister, Thanks so much for the reply — that makes a lot of sense! I was benchmarking to see
Oct 17
Juan Carlos De la Concepción
, …
Kewei Gu
20
Oct 13
Particle recentering from Relion to Warp
Thank you so much! On Monday, October 13, 2025 at 9:51:06 PM UTC+8 alist...@gmail.com wrote: Oh and
unread,
Particle recentering from Relion to Warp
Thank you so much! On Monday, October 13, 2025 at 9:51:06 PM UTC+8 alist...@gmail.com wrote: Oh and
Oct 13
Hamidreza Rahmani
,
teg...@gmail.com
6
Oct 13
Padding in MCore refinement
Update on this: my GPU could manage as low as 1.4A. However, I could not perform frame refinement
unread,
Padding in MCore refinement
Update on this: my GPU could manage as low as 1.4A. However, I could not perform frame refinement
Oct 13
Wanlong Hu
,
Alister Burt
13
Oct 13
Help troubleshooting Relion5 Refine3D crash with Warp-processed tomo particles
Hi Wanlong, I'm glad you got sorted, great work and thanks for sharing publicly! Cheers, Alister
unread,
Help troubleshooting Relion5 Refine3D crash with Warp-processed tomo particles
Hi Wanlong, I'm glad you got sorted, great work and thanks for sharing publicly! Cheers, Alister
Oct 13
Maurice Frijns
, …
teg...@gmail.com
7
Oct 13
Is dose weighting performed on tiltseries in WarpTools?
Hi Dimitri and Alister, Thanks for the responses, very insightful! Cheers, Maurice Op ma 13 okt 2025
unread,
Is dose weighting performed on tiltseries in WarpTools?
Hi Dimitri and Alister, Thanks for the responses, very insightful! Cheers, Maurice Op ma 13 okt 2025
Oct 13
P C
,
Alister Burt
4
Oct 10
simple transformation of a star file
Hi Peter, Probably best to just manipulate your input star file before import into M, here is my
unread,
simple transformation of a star file
Hi Peter, Probably best to just manipulate your input star file before import into M, here is my
Oct 10
P C
,
Alister Burt
2
Oct 7
physical overlap of species
Overlapping density is not modelled explicitly and the low resolution information in your data will
unread,
physical overlap of species
Overlapping density is not modelled explicitly and the low resolution information in your data will
Oct 7
P C
,
Alister Burt
3
Oct 6
refine_stageangles
thank you! On Tuesday, October 7, 2025 at 12:41:44 AM UTC+1 alist...@gmail.com wrote: Hi Peter, Your
unread,
refine_stageangles
thank you! On Tuesday, October 7, 2025 at 12:41:44 AM UTC+1 alist...@gmail.com wrote: Hi Peter, Your
Oct 6
Hamidreza Rahmani
,
Alister Burt
3
Oct 6
Removing bad tilts
Thank you for the quick response Alister. I wanted to make sure I am not missing anything here, the
unread,
Removing bad tilts
Thank you for the quick response Alister. I wanted to make sure I am not missing anything here, the
Oct 6
Matt Martinez
Oct 6
Matching Warp/Relion particles with the original Dynamo tags
Hi everyone, I'm trying to match the particles from Warp and Relion 5 refinements back to the
unread,
Matching Warp/Relion particles with the original Dynamo tags
Hi everyone, I'm trying to match the particles from Warp and Relion 5 refinements back to the
Oct 6
Grigory Tagiltsev
,
Alister Burt
2
Sep 30
step back in M
Hi Grigory, You will find a number of files in “versions” folders, at a minimum you should place
unread,
step back in M
Hi Grigory, You will find a number of files in “versions” folders, at a minimum you should place
Sep 30
Niharika Shukla
, …
Alister Burt
8
Sep 30
Defect map does not match image dimensions
Hey Niharika, Really glad you were able to use our packages to solve your issue - thanks also for
unread,
Defect map does not match image dimensions
Hey Niharika, Really glad you were able to use our packages to solve your issue - thanks also for
Sep 30
Peng Liu
,
Alister Burt
5
Sep 29
Issues with particle extraction in Warp
Hi Alister, Thank you for pointing out the concern regarding the signal. We will carefully reassess
unread,
Issues with particle extraction in Warp
Hi Alister, Thank you for pointing out the concern regarding the signal. We will carefully reassess
Sep 29
Reika Watanabe
Sep 27
How to export particles from several directories
Hi, I want to export particles from two different WarpTool directories taken at different dates. I
unread,
How to export particles from several directories
Hi, I want to export particles from two different WarpTool directories taken at different dates. I
Sep 27
Peng Liu
, …
Daniel Cai
11
Sep 25
Hi Reika, Try the: invert/no-invert flag in ts_reconstruct. Daniel Get Outlook for iOS From: warp-em@
unread,
Hi Reika, Try the: invert/no-invert flag in ts_reconstruct. Daniel Get Outlook for iOS From: warp-em@
Sep 25
Bin Tsai
, …
Juha Huiskonen
16
Sep 24
MCore error on slurm cluster gpu nodes
Hi Kain, Thanks for sharing this! In the meantime, I have modified the source code to make it run on
unread,
MCore error on slurm cluster gpu nodes
Hi Kain, Thanks for sharing this! In the meantime, I have modified the source code to make it run on
Sep 24
Lucas Morley
, …
Reika Watanabe
7
Sep 19
WarpTools ts_reconstruct map mode
Hi Alister, Thank you very much for clarifying it! Reika On Fri, Sep 19, 2025 at 5:35 PM Alister Burt
unread,
WarpTools ts_reconstruct map mode
Hi Alister, Thank you very much for clarifying it! Reika On Fri, Sep 19, 2025 at 5:35 PM Alister Burt
Sep 19
Siyu Chen
,
teg...@gmail.com
3
Sep 19
Different motion corr outcome when applying the gain reference to the same dataset using dev31 vs. dev34
Hi Dimitry, Thanks for checking on this issue. I saw that in the latest release, the EER gain
unread,
Different motion corr outcome when applying the gain reference to the same dataset using dev31 vs. dev34
Hi Dimitry, Thanks for checking on this issue. I saw that in the latest release, the EER gain
Sep 19
Kyle Messina
, …
Madeline Rollins
9
Sep 16
Cryolo and Imod Particle Picks to WarpTools
Hi all, I was wondering if I could re-open this thread about using star files generated by crYOLO as
unread,
Cryolo and Imod Particle Picks to WarpTools
Hi all, I was wondering if I could re-open this thread about using star files generated by crYOLO as
Sep 16
Doulin Shepherd
, …
Huy Bui
6
Sep 15
Importing old alignments from imod question
Hi Pranav, I've always wondered about this, so it's nice to get some confirmation on the
unread,
Importing old alignments from imod question
Hi Pranav, I've always wondered about this, so it's nice to get some confirmation on the
Sep 15
Euan William Pyle
Sep 8
Using M to Refine Membrane Proteins
Hi all, I'm currently refining a membrane protein using M, and wanted to crowd source some
unread,
Using M to Refine Membrane Proteins
Hi all, I'm currently refining a membrane protein using M, and wanted to crowd source some
Sep 8
yoko “yokomaz” maz
Sep 4
Noise2Map unhandle expection
Hi community, I'm trying to use Noise2Map to denoise my tomograms, I followed the tutorial to use
unread,
Noise2Map unhandle expection
Hi community, I'm trying to use Noise2Map to denoise my tomograms, I followed the tutorial to use
Sep 4