Details
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Type:
Bug
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Status: Closed (View Workflow)
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Priority:
Critical
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:2
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Epic Link:
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Sprint:Spring 9
Description
Situation: Several IGB users have reached out describing an issue occurring when they try to load bigwig and bigbed files in IGB 10.0.0. It appears that this is caused by the occurrence of special characters, such as spaces, in the file's name or a folder name that the file is within. Here's the latest email from a user describing this issue:
Dear IGB Team,
Yesterday, I updated the IGB in my desktop to the latest version 10.0.0.
Since then my IGB does not work properly any more. No matter which genome I'm going to use (Arabidopsis thaliana, Aspergillus nidulans or others), it seems, initially, that the genome file with the corresponding .gff3s files are loaded, but when I`m trying to upload my ChIP-seq .bigwig files as well (which I have used successfully plenty of times in the past with the previous version of IGB), it appears at the bottom left of the screen that there are is a short of retrieving information about chromosomes but it actually the whole process never ends with a final result to not be able to visualize my ChIP-seq data with from diff. organisms that it was a matter of minutes to do with the older version of IGB.
Could you please help me with that issue?
Best wishes,
ManolisFYI: By the way the 9.1.10 version has just worked great, with the same files the new version 10.0.0 failed.
Attachments
Issue Links
- relates to
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- Closed
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-1765 [ 17855 ] |
| Summary | Fix error | Fix bug preventing bigwig/bigbed files from loading |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Summary | Fix bug preventing bigwig/bigbed files from loading | User Report: Issue loading bigWig file |
| Description |
Situation: Several IGB users have reached out describing an issue occurring when they try to load bigwig and bigbed files in IGB 10.0.0. It appears that this is caused by the occurrence of special characters, such as spaces, in the file's name or a folder name that the file is within. Here's the latest email from a user describing this issue:
{quote}Dear IGB Team, Yesterday, I updated the IGB in my desktop to the latest version 10.0.0. Since then my IGB does not work properly any more. No matter which genome I'm going to use (Arabidopsis thaliana, Aspergillus nidulans or others), it seems, initially, that the genome file with the corresponding .gff3s files are loaded, but when I`m trying to upload my ChIP-seq .bigwig files as well (which I have used successfully plenty of times in the past with the previous version of IGB), it appears at the bottom left of the screen that there are is a short of retrieving information about chromosomes but it actually the whole process never ends with a final result to not be able to visualize my ChIP-seq data with from diff. organisms that it was a matter of minutes to do with the older version of IGB. Could you please help me with that issue? Best wishes, Manolis FYI: By the way the 9.1.10 version has just worked great, with the same files the new version 10.0.0 failed.{quote} Task: Fix the error causing bigwig and bigbed files to load in IGB 10.0.0. Then, release a new version of IGB with these changes ASAP and post an update to the Google Group. |
Situation: Several IGB users have reached out describing an issue occurring when they try to load bigwig and bigbed files in IGB 10.0.0. It appears that this is caused by the occurrence of special characters, such as spaces, in the file's name or a folder name that the file is within. Here's the latest email from a user describing this issue:
{quote}Dear IGB Team, Yesterday, I updated the IGB in my desktop to the latest version 10.0.0. Since then my IGB does not work properly any more. No matter which genome I'm going to use (Arabidopsis thaliana, Aspergillus nidulans or others), it seems, initially, that the genome file with the corresponding .gff3s files are loaded, but when I`m trying to upload my ChIP-seq .bigwig files as well (which I have used successfully plenty of times in the past with the previous version of IGB), it appears at the bottom left of the screen that there are is a short of retrieving information about chromosomes but it actually the whole process never ends with a final result to not be able to visualize my ChIP-seq data with from diff. organisms that it was a matter of minutes to do with the older version of IGB. Could you please help me with that issue? Best wishes, Manolis FYI: By the way the 9.1.10 version has just worked great, with the same files the new version 10.0.0 failed.{quote} |
| Assignee | Nowlan Freese [ nfreese ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | To-Do [ 10305 ] |
| Sprint | Spring 8 [ 192 ] | Spring 9 [ 193 ] |
| Attachment | UserReport_Manolis_IGBLog.txt [ 18346 ] |
| Assignee | Paige Kulzer [ pkulzer ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |