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  1. IGB
  2. IGBF-2640

Test Track Operators - Graph Tracks - Windows

    Details

    • Type: Task
    • Status: Closed (View Workflow)
    • Priority: Major
    • Resolution: Done
    • Affects Version/s: None
    • Fix Version/s: None
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          chirag24 Chirag Chandrahas Shetty added a comment - - edited

          The graph for the following track operations are not same as the image in the wiki:

          1) Inverse: Natural log: Even Numbers
          2) Inverse: log3: Even Numbers
          3) Inverse: Even Numbers

          Show
          chirag24 Chirag Chandrahas Shetty added a comment - - edited The graph for the following track operations are not same as the image in the wiki: 1) Inverse: Natural log: Even Numbers 2) Inverse: log3: Even Numbers 3) Inverse: Even Numbers
          Hide
          aloraine Ann Loraine added a comment -

          The images one the page for operations in which division by zero occurs are likely now to be out of date due to implementation of https://jira.transvar.org/browse/IGBF-1344 "graph operations don't handle inverse 0 well"

          Does this address the above comment?
          cc: Chirag Chandrahas Shetty and Nowlan Freese

          Show
          aloraine Ann Loraine added a comment - The images one the page for operations in which division by zero occurs are likely now to be out of date due to implementation of https://jira.transvar.org/browse/IGBF-1344 "graph operations don't handle inverse 0 well" Does this address the above comment? cc: Chirag Chandrahas Shetty and Nowlan Freese
          Hide
          nfreese Nowlan Freese added a comment -

          The numbers for Inverse tracks tend to be very small. The y-axis needs to be adjusted for the view to match the image in the testing wiki. I tested on Linux, and it appears correctly once the y-axis has been adjusted.

          Show
          nfreese Nowlan Freese added a comment - The numbers for Inverse tracks tend to be very small. The y-axis needs to be adjusted for the view to match the image in the testing wiki. I tested on Linux, and it appears correctly once the y-axis has been adjusted.
          Hide
          chirag24 Chirag Chandrahas Shetty added a comment -

          IGB is not able to load some of the IGB quick-sites. It is same with 9.1.4.

          Log:
          15:48:50.996 INFO o.l.i.q.QuickloadDataProvider - Initializing Quickload Server http://lorainelab-quickload.scidas.org/quickload/
          15:49:08.326 INFO o.l.i.q.QuickloadDataProvider - Initializing Quickload Server http://lorainelab-quickload.scidas.org/chipseq/
          15:49:08.537 WARN o.l.i.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://lorainelab-quickload.scidas.org/chipseq/synonyms.txt
          15:49:08.608 WARN o.l.i.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://lorainelab-quickload.scidas.org/chipseq/species.txt
          15:49:26.477 INFO o.l.i.q.QuickloadDataProvider - Initializing Quickload Server http://lorainelab-quickload.scidas.org/rnaseq/
          15:49:26.641 WARN o.l.i.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://lorainelab-quickload.scidas.org/rnaseq/synonyms.txt
          15:49:26.714 WARN o.l.i.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://lorainelab-quickload.scidas.org/rnaseq/species.txt

          Show
          chirag24 Chirag Chandrahas Shetty added a comment - IGB is not able to load some of the IGB quick-sites. It is same with 9.1.4. Log: 15:48:50.996 INFO o.l.i.q.QuickloadDataProvider - Initializing Quickload Server http://lorainelab-quickload.scidas.org/quickload/ 15:49:08.326 INFO o.l.i.q.QuickloadDataProvider - Initializing Quickload Server http://lorainelab-quickload.scidas.org/chipseq/ 15:49:08.537 WARN o.l.i.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://lorainelab-quickload.scidas.org/chipseq/synonyms.txt 15:49:08.608 WARN o.l.i.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://lorainelab-quickload.scidas.org/chipseq/species.txt 15:49:26.477 INFO o.l.i.q.QuickloadDataProvider - Initializing Quickload Server http://lorainelab-quickload.scidas.org/rnaseq/ 15:49:26.641 WARN o.l.i.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://lorainelab-quickload.scidas.org/rnaseq/synonyms.txt 15:49:26.714 WARN o.l.i.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://lorainelab-quickload.scidas.org/rnaseq/species.txt
          Hide
          aloraine Ann Loraine added a comment -

          Sorry for the confusion Chirag Chandrahas Shetty. These particular warnings are normal because these particular files are optional. A quickload site can contain them, but it is not mandatory that they do.

          Show
          aloraine Ann Loraine added a comment - Sorry for the confusion Chirag Chandrahas Shetty . These particular warnings are normal because these particular files are optional. A quickload site can contain them, but it is not mandatory that they do.
          Hide
          chirag24 Chirag Chandrahas Shetty added a comment -

          The values are not zero for The Single Track Operations - part 4 - inverse logs section the blue tracks are all essentially 0, or only trivially different from 0 (values like 9.536743E-7).

          Show
          chirag24 Chirag Chandrahas Shetty added a comment - The values are not zero for The Single Track Operations - part 4 - inverse logs section the blue tracks are all essentially 0, or only trivially different from 0 (values like 9.536743E-7).
          Hide
          aloraine Ann Loraine added a comment -

          Instructions need to be updated to reflect above observations - see linked ticket. Also, we will be improving the usability for the interface in future efforts.

          Show
          aloraine Ann Loraine added a comment - Instructions need to be updated to reflect above observations - see linked ticket. Also, we will be improving the usability for the interface in future efforts.

            People

            • Assignee:
              chirag24 Chirag Chandrahas Shetty
              Reporter:
              aloraine Ann Loraine
            • Votes:
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              • Created:
                Updated:
                Resolved: