I followed the tutorial for Docker, and no errors were found for metadata, FASTQ files, or the directory. I tried running it twice now and it always stops at 92% for >5 hours.
We’ve been having this issue with only some types of computers. It appears that the application is running out of memory and so the results cannot be compiled and ‘finish’ the job. However, we cannot reproduce the issue in our own system.
Can you let us know some details about your computer, such as operating system, RAM, CPUs etc?
Hello,
I am having the same issue as above. Below are two images with information.
Please, let us know how we can force our laptops to complete the test run.
Thank you,
Thank you for the note. Can you provide more information about your computer OS information?
We are trying to reproduce the issue from our side - it seems to be working well on several Linux and several Mac OS systems.
Hello, thank you for your quick reply. Here is more information. "Edition Windows 10 Enterprise
Version 21H2, Experience Windows Feature Experience Pack 1000.19053.1000.0 "
. Happy to provide any other information to replicate the issue on your side.
Hi! I have similar issues. I tried few times and mine may get stuck at any percentage, e.g. 10%, 20%, 50%, 90%… According to docker stats, my CPU usage also drops to near 0 at the same time. If I try to “cancel” or “refresh” status, nothing would happen.
System:
Chip: Apple M3 Pro
Memory: 18GB
OS: macOS Sonoma
Storage: 292 GB
Example:
Yes, the new Apply M series are not well supported by Kallisto as far as I know. Intel and AMD work well. Personally, I use Apple M chips mainly for AI related work, while keep my Intel Mac for other tasks. I hope most algorithms will be updated to take advantage of this new CPU types.
Hi ! First of all thank you for providing the scientific community with this powerful tool.
I have similar issue for my first use of Expressanalyst (local processing). Job progress is stucked at 96% for more than 12H.
It is weird because there is no fail. But it seems that it will never finish.
Should I stop it ? And do it again ?
Or is there any issue with my system ? Did I choose a non-working Linux distribution ?
System: Zorin 17 (based on Ubuntu 20.04 LTS)
Arch: x86_64
Kernel: 6.8.0-40-generic
DE: XFCE (X11) - LightDM
CPU: Intel(R) Core™ i5-6500 CPU @ 3.20GHz
Memory: 8GB
Storage: SSD 500GB
Yes, we notice some inconsistent behaviors running kallisto in Docker environment setup. I suspect it is related to some low level libraries. You may want to ask the kallisto development team with your Docker console output (not the web interface - as it only capture those errors we know about)
The alternative is to try our online version which is not based on Docker.
Thank you. I will ask the kallisto development team.
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