Timeline
Feb 17, 2023:
- 4:04 PM Changeset [7051] by
- References #1465: JSON and raw FASTQ files that are submitted from …
- 8:40 AM Changeset [7050] by
- References #1465: JSON and raw FASTQ files that are submitted from …
Feb 15, 2023:
- 11:23 AM Changeset [7049] by
- References #1465: JSON and raw FASTQ files that are submitted from …
- 8:45 AM Changeset [7048] by
- References #1464: New pipeline for DNA whole genome sequencing …
Feb 14, 2023:
- 1:49 PM Ticket #1465 (JSON and raw FASTQ files that are submitted from external lab should ...) created by
- Currently, the JSON file is linked with the Specimen item as remote …
- 1:28 PM Changeset [7047] by
- References #1464: New pipeline for DNA whole genome sequencing …
- 11:08 AM Changeset [7046] by
- References #1464: New pipeline for DNA whole genome sequencing Added …
- 9:24 AM Ticket #1464 (New pipeline for DNA whole genome sequencing) created by
- Typically samples are paired with one blood DNA sample and one (or …
Feb 13, 2023:
- 1:00 PM Changeset [7045] by
- Changes for future release Reggie 4.45
- 12:59 PM Milestone Reggie v4.44 completed
- See Reggie extension page for more information.
- 12:58 PM net.sf.basedb.reggie edited by
- Released Reggie 4.44 (diff)
- 12:55 PM Changeset [7044] by
- Tagging Reggie 4.44
- 12:54 PM Changeset [7043] by
- Preparing to release Reggie 4.44
- 12:02 PM Tickets #1453,1460 batch updated by
- fixed
- 12:01 PM Changeset [7042] by
- Updated to Job Scheduler 1.9
- 12:00 PM Changeset [7041] by
- Updated to Job Scheduler 1.9
- 11:56 AM Changeset [7040] by
- Changes for future version Job scheduler 1.10
- 11:54 AM Milestone Job scheduler extension v1.9 completed
- See the Job scheduler extension page for …
- 11:54 AM net.sf.basedb.opengrid edited by
- Released Job scheduler extension 1.9 (diff)
- 11:49 AM Changeset [7039] by
- Tagging Job Scheduler extension v1.9
- 11:49 AM Changeset [7038] by
- Preparing to release Job Scheduler extension v1.9
- 8:33 AM Changeset [7037] by
- References #1460: Add support for BloodDNA in the Outtake wizards …
Feb 10, 2023:
- 2:16 PM Ticket #1456 (SimpleDateFormat implementation is not thread-safe) closed by
- fixed: In 7036: […]
- 2:16 PM Changeset [7036] by
- Fixes #1456: SimpleDateFormat? implementation is not thread-safe …
- 12:54 PM Changeset [7035] by
- References #1453: Make the release exporter multi-threaded Changed …
- 9:31 AM Changeset [7034] by
- References #1453: Make the release exporter multi-threaded Fixed …
- 8:55 AM Ticket #1454 (SimpleDateFormat implementation is not thread-safe) closed by
- fixed
- 8:46 AM Ticket #1461 (Temporarily disable importing of sampling and RNA later date in the ...) closed by
- fixed
- 8:43 AM Changeset [7033] by
- Fixes #1463: Temporarily disable importing of sampling and RNA later …
- 8:39 AM Ticket #1463 (Add activity log entries when importing JSON files) closed by
- fixed: In 7032: […]
- 8:39 AM Changeset [7032] by
- Fixes #1463: Add activity log entries when importing JSON files
Feb 9, 2023:
- 2:49 PM Ticket #1457 (Increase the timeout for "Picard CheckIlluminaDirectory") closed by
- fixed: In 7031: […]
- 2:49 PM Changeset [7031] by
- Fixes #1457: Increase the timeout for "Picard CheckIlluminaDirectory?" …
- 2:16 PM Changeset [7030] by
- References #1457: Increase the timeout for "Picard …
- 2:07 PM Changeset [7029] by
- References #1455: SimpleDateFormat? implementation is not thread-safe …
- 2:05 PM Ticket #1455 (SimpleDateFormat implementation is not thread-safe) closed by
-
fixed: We use the
SimpleDateFormatclass only via theDateFormatter… - 1:19 PM Ticket #1458 (The timeout when executing a command seems to not work) closed by
- fixed: In 7028: […]
- 1:19 PM Changeset [7028] by
- Fixes #1458: The timeout when executing a command seems to not work …
- 11:32 AM Ticket #1463 (Add activity log entries when importing JSON files) created by
- I noticed that this event was never included in the activity log, but …
- 11:30 AM Ticket #1462 (Re-enable importing of sampling and RNA later date in the JSON importer) created by
- Temporarily disabled in #1461.
- 11:29 AM Ticket #1461 (Temporarily disable importing of sampling and RNA later date in the ...) created by
- The latest information we have is that the values in the JSON files …
- 11:26 AM Ticket #1460 (Add support for BloodDNA in the Outtake wizards) created by
- BloodDNA items are typically registered manually, but we should assume …
- 9:44 AM Ticket #1459 (Update to SSHj 0.35) closed by
- fixed: In 7027: […]
- 9:44 AM Changeset [7027] by
- Fixes #1459: Update to SSHj 0.35
- 9:30 AM Ticket #1459 (Update to SSHj 0.35) created by
- 9:26 AM Ticket #1458 (The timeout when executing a command seems to not work) created by
-
The
AbstractSession.execute()method has a timeout parameter which …
Feb 8, 2023:
- 2:36 PM Ticket #1457 (Increase the timeout for "Picard CheckIlluminaDirectory") created by
- This is run by auto-confirmer when a sequencing has been completed and …
- 2:07 PM Changeset [7026] by
- References #1454: SimpleDateFormat? implementation is not thread-safe …
- 2:03 PM Changeset [7025] by
- References #1454: SimpleDateFormat? implementation is not thread-safe …
- 8:58 AM Ticket #1456 (SimpleDateFormat implementation is not thread-safe) created by
-
See #1454.
We use the
SimpleDateFormatclass in some places. - 8:57 AM Ticket #1455 (SimpleDateFormat implementation is not thread-safe) created by
-
See #1454.
We use the
SimpleDateFormatclass in some places.
Feb 7, 2023:
- 2:23 PM Changeset [7024] by
- References #1454: SimpleDateFormat? implementation is not thread-safe …
- 1:39 PM Changeset [7023] by
- References #1454: SimpleDateFormat? implementation is not thread-safe …
- 11:51 AM Ticket #1454 (SimpleDateFormat implementation is not thread-safe) created by
-
We use the
java.text.SimpleDateFormatimplementation to format and …
Feb 6, 2023:
- 2:45 PM Changeset [7022] by
- References #1453: Make the release exporter multi-threaded Use 1/3 of …
Feb 1, 2023:
- 1:38 PM Ticket #1453 (Make the release exporter multi-threaded) created by
- I think the performance of the release exporter can be improved by …
Jan 30, 2023:
- 2:06 PM Tickets #1452,1399 batch updated by
- fixed
- 2:06 PM Tickets #1393,1451 batch updated by
- fixed
Jan 27, 2023:
- 2:15 PM Changeset [7021] by
- References #1399: The Release importer should handle null values for …
- 11:57 AM Changeset [7020] by
- References #1451: Release exporter changes due to Methylation data …
- 9:33 AM Changeset [7019] by
- References #1451: Release exporter changes due to Methylation data …
- 9:03 AM Changeset [7018] by
- References #1393: Release exporter changes due to Oncoarray data …
- 8:44 AM Changeset [7017] by
- References #1393: Release exporter changes due to Oncoarray data …
Jan 26, 2023:
- 2:23 PM Changeset [7016] by
- References #1393: Release exporter changes due to Oncoarray data The …
- 1:48 PM Changeset [7015] by
- References #1452: Release importer changes due to new subtypes from …
- 1:24 PM Changeset [7014] by
- References #1393: Release exporter changes due to Oncoarray data …
- 11:33 AM Changeset [7013] by
- 11:13 AM Changeset [7012] by
- References #1399: The Release importer should handle null values for …
Jan 25, 2023:
- 2:15 PM Changeset [7011] by
- References #1393: Release exporter changes due to Oncoarray data …
- 1:27 PM Changeset [7010] by
- References #1451: Release exporter changes due to Methylation data …
- 9:52 AM Changeset [7009] by
- References #1451: Release exporter changes due to Methylation data A …
- 9:45 AM Changeset [7008] by
- References #1452: Release importer changes due to new subtypes from …
- 8:45 AM Changeset [7007] by
- References #1393: Release exporter changes due to Oncoarray data …
Jan 24, 2023:
- 2:34 PM Changeset [7006] by
- References #1451: Release exporter changes due to Methylation data …
- 2:09 PM Ticket #1452 (Release importer changes due to new subtypes from Reggie) created by
- The next data release from Reggie will probably include new subtypes …
- 11:55 AM Ticket #1451 (Release exporter changes due to Methylation data) created by
- In tickets #1418 and #1419, we added data from Methylation EPIC chips …
Jan 23, 2023:
- 9:00 AM Changeset [7005] by
- Changes for future release Reggie 4.44
- 8:59 AM Milestone Reggie v4.43 completed
- See Reggie extension page for more information.
- 8:58 AM net.sf.basedb.reggie edited by
- Released Reggie 4.43 (diff)
- 8:56 AM Changeset [7004] by
- Tagging Reggie 4.43
- 8:56 AM Changeset [7003] by
- Preparing to release Reggie 4.43
- 8:52 AM Ticket #1446 (Add an annotation for extra PAD values) closed by
- fixed
- 8:51 AM Changeset [7002] by
- References #1446: Add an annotation for extra PAD values Fixed a …
Jan 20, 2023:
- 2:59 PM Ticket #1450 (Hisat/2023 alignments should not show up in the Genotype QC wizards) closed by
- fixed: In 7001: […]
- 2:59 PM Changeset [7001] by
- Fixes #1450: Hisat/2023 alignments should now show up in the Genotype …
- 1:40 PM Ticket #1450 (Hisat/2023 alignments should not show up in the Genotype QC wizards) created by
- The Hisat/2023 alignment are normally disabled for use with the …
- 1:34 PM Ticket #1449 (The JSON import wizard should not reserve specimen names in advance) closed by
- fixed: In 7000: […]
- 1:34 PM Changeset [7000] by
- Fixes #1449: The JSON import wizard should not reserve specimen names …
- 1:30 PM Ticket #1449 (The JSON import wizard should not reserve specimen names in advance) created by
- When the import wizard can't find an existing NoSpecimen item to link …
- 1:14 PM Ticket #1448 (The "ReferenceDate" annotation should not be used as a timepoint for ...) closed by
- fixed: In 6999: […]
- 1:14 PM Changeset [6999] by
- Fixes #1448: The "ReferenceDate?" annotation should not be used as a …
- 1:05 PM Ticket #1448 (The "ReferenceDate" annotation should not be used as a timepoint for ...) created by
- The ReferenceDate is used in cases when there is no registered …
- 1:02 PM Changeset [6998] by
- References #1446: Add an annotation for extra PAD values Added a link …
- 11:02 AM Ticket #1447 (The "All first names" field in the pathology referral form is ...) closed by
- fixed: In 6997: […]
- 11:02 AM Changeset [6997] by
- Fixes #1447: The "All first names" field in the pathology referral …
- 11:00 AM Ticket #1447 (The "All first names" field in the pathology referral form is ...) created by
- It seems like if the user uses the ENTER key to step between fields …
- 10:55 AM Changeset [6996] by
- References #1446: Add an annotation for extra PAD values Display the …
- 8:38 AM Changeset [6995] by
- References #1446: Add an annotation for extra PAD values The …
- 8:32 AM Changeset [6994] by
- References #1446: Add an annotation for extra PAD values The …
- 7:56 AM Changeset [6993] by
- References #1446: Add an annotation for extra PAD values If the …
Jan 19, 2023:
- 1:30 PM Changeset [6992] by
- References #1446: Add an annotation for extra PAD values The JSON …
- 9:51 AM Changeset [6991] by
- References #1446: Add an annotation for extra PAD values Added a …
- 8:32 AM Changeset [6990] by
- References #1446: Add an annotation for extra PAD values Added …
Jan 18, 2023:
- 2:46 PM Ticket #1446 (Add an annotation for extra PAD values) created by
- In some cases an extra PAD value is created for samples that are …
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