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No upload to Panorama from AutoQC michael plank  2017-04-12
 
Hi all,
I`m trying to use AutoQC, but the data do not end up on Panorama. I`m wondering if you might have a look at my settings if I`m getting anything wrong: Screenshots attached.
I set the 'Expected acquisition duration' short, as the files are not written to the folder by the instrument, but I copy-paste them there.

AutoQC says "running", already for several hours on this configuration.
Panorama says "
20170410_RapMock2nd_1
No sample files imported"

I`m also attaching a copy of today`s log entries.


Thanks a lot for your help.
Michael
 
 
vsharma responded:  2017-04-12
Hi Michael,

From the log I can see that your Skyline document already has a raw file imported (20170322_66_Rap6.raw) and the acquisition date on that file is 30/03/2017 10:27:03. All the other raw files in the folder were acquired before this one. Since AutoQC Loader only imports files that are newer than the most recently acquired file in the Skyline document, none of the files are imported, as you can see in the log (pasted below). Nothing is uploaded to Panorama in this case.

If you want to import older data, I would recommend that you remove the newer replicates from the document first or start with an empty document.

I hope this helps. Let me know if you have any other questions.

Thanks,
Vagisha


[11/04/2017 09:22:51] Existing files found: 12
[11/04/2017 09:22:51] 20170322_32_Rap1.raw was acquired (26/03/2017 10:55:34) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_35_Rap4.raw was acquired (26/03/2017 19:47:15) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_38_Mock4.raw was acquired (27/03/2017 04:39:24) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_41_Mock6.raw was acquired (27/03/2017 13:31:25) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_44_Mock3.raw was acquired (27/03/2017 22:23:59) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_47_Mock1.raw was acquired (28/03/2017 07:16:29) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_51_Rap3.raw was acquired (28/03/2017 17:39:15) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_54_Rap5.raw was acquired (29/03/2017 02:32:40) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_57_Mock2.raw was acquired (29/03/2017 11:25:40) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_60_Mock5.raw was acquired (29/03/2017 20:19:15) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:51] 20170322_63_Rap2.raw was acquired (30/03/2017 05:12:33) before the acquisition date (30/03/2017 10:27:03) on the last imported file in the Skyline document. Skipping...
[11/04/2017 09:22:55] 20170322_66_Rap6.raw is ready
[11/04/2017 09:22:55] Running SkylineRunner.exe with args:
[11/04/2017 09:22:55]
 --in="M:\QC\iRT.sky" --import-file="M:\20170312_RapMock2nd\raws_RapMock1\20170322_66_Rap6.raw" --import-on-or-after=30/03/2017 10:27:03 --save
 --panorama-server="https://panoramaweb.org" --panorama-folder="/U%20of%20Geneva%20–%20Loewith%20Lab/20170407_RapMock2nd/20170410_RapMock2nd_1" --panorama-username="michael.plank@unige.ch"
[11/04/2017 09:22:58] Opening file...
[11/04/2017 09:22:59] File iRT.sky opened.
[11/04/2017 09:23:00] Warning: The replicate 20170322_66_Rap6 already exists in the given document and the --import-append option is not specified. The replicate will not be added to the document.
[11/04/2017 09:23:00] Saving file...
 
michael plank responded:  2017-04-13
Thanks.
I wasn`t aware that only newer results would be read. I`m trying again.

Michael
 
michael plank responded:  2017-04-13
Ok, I think I`ve actually made it worse now..

I created a new folder on my PC and copied the .sky file in there. I deleted all the loaded results from the file. I created a new folder on Panorama and a new configuration, using the new .sky, Panorama folder and folder on my PC. The I started copying .raw files into the folder, starting with the oldest. This one was successfully uploaded to Panorama, but nothing happened with the next two.
When I try to access the log for the new configuration: 'Log file does not exist. M:\20170312_RapMock2nd\raws_RapMock2\AutoQC.log'
When I stop the run (has been running for at least 4h since transferred the last file to the target folder) and check the .sky, the file that has been uploaded is in there, but not the others.

Any ideas?

Thank you,
Michael
 
vsharma responded:  2017-04-13
Hi Michael,

Is the folder on a mapped network drive? Can you check in the folder if the log file exists? If it does can you please send it to me? Also, if the file exits can you please try the following:

1. Stop the configuration if it is running. Select the configuration and click the "View Log" button.
2. Return to the "Configurations" tab and start the configuration.

Let me know if you see any new output in the "Log" tab. If possible, take a screen capture.

Thanks,
Vagisha
 
michael plank responded:  2017-04-19
Hi,
thanks again.
No, it`s not on a network drive, but on an external harddrive - I can`t do that any other way as the harddisk of my PC isn`t big enough for more than a few .raw files.
I can`t see the actual log file in the folder either. When I stop the run and try to see the log, I still get 'Log file does not exist. M:\20170312_RapMock2nd\raws_RapMock2\AutoQC.log'. There is no output generated.

Best,
Michael
 
vsharma responded:  2017-04-19
Hi Michael,

Would it be possible to do a Webex call to try to debug this? I can send you an invitation. You will be prompted to install the free Webex client when you try to join the meeting. Anytime tomorrow will work for me.

Thanks,
Vagisha