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Date Batch Status
20151205 ISPY2/BatchOf20.RNASeq.1.txt Entered
20151207 WCDT/prostate.wxs.2.txt In Progress
20151208 WCDT/prostate.wxs.2.txt MuTect pipeline run, results available
20151215 WCDT/prostate.wxs.2.txt MuSe pipeline run, results available
20151209 WCDT/medbook_OHSU_RNA-seq.3.txt Uploaded
20151215 WCDT/medbook_OHSU_RNA-seq.3.txt RNASeq pipeline started
20160106 WCDT/medbook_OHSU_RNA-seq.3.input.txt Uploaded
20160106 WCDT/medbook_OHSU_RNA-seq.3.input.txt In process
20160107 WCDT/medbook_OHSU_RNA-seq.3.input.txt Failed
20160318 WCDT/medbook_OHSU_RNA-seq.3.input.txt Reported as completed by Paul
20151214 WCDT/medbook_UCSF_RNA-seq.4.txt Uploaded
20151214 WCDT/medbook_UCSF_RNA-seq.4.txt RNASeq pipeline started
20151215 WCDT/medbook_UCSF_RNA-seq.4.txt RNASeq pipeline run
20151214 WCDT/medbook_UCSF_RNA-seq.5.txt Uploaded
20151215 WCDT/medbook_UCSF_RNA-seq.5.txt RNASeq pipeline started
20151215 WCDT/medbook_UCSF_RNA-seq.6.txt Uploaded
20151215 WCDT/medbook_UCSF_RNA-seq.6.txt RNASeq pipeline started
20160105 WCDT/medbook_UCSF_RNA-seq.20160106.8.input.txt Entered
20160106 WCDT/medbook_UCSF_RNA-seq.20160106.8.input.txt Uploaded
20160106 WCDT/medbook_UCSF_RNA-seq.20160106.8.input.txt In process
20160108 WCDT/medbook_UCSF_RNA-seq.20160106.8.input.txt Failed
20160108 WCDT/medbook_UCSF_RNA-seq.20160106.8.input.txt In process
20160110 WCDT/medbook_UCSF_RNA-seq.20160106.8.output.txt Completed
20160110 WCDT/medbook_UCSF_RNA-seq.20160106.8.output.txt QC
20160111 WCDT/medbook_UCSF_RNA-seq.20160106.8.output.txt Notified
20160111 WCDT/medbook_UCSF_RNA-seq.20160111.9.input.txt Entered
20160111 WCDT/medbook_UCSF_RNA-seq.20160111.9.input.txt Uploaded
20160111 WCDT/medbook_UCSF_RNA-seq.20160111.9.input.txt In process
20160111 WCDT/medbook_UCSF_RNA-seq.20160111.9.input.txt Completed
20160114 CKCC/PNOC_RNA-seq.20160114.10.input.txt Entered
20160308 CKCC/PNOC_RNA-seq.20160114.10.input.txt RNASeq analysis run as part of big recompute, results delivered to Medbook.
20160318 WCDT/medbook_UCSF_RNA-seq.20160120.11 Reported as done by Paul Lloyd
20160321 CKCC/stanford-rnaseq-20160318.13.input.txt Entered
20160322 CKCC/stanford-rnaseq-20160318.13.input.txt Completed
20160322 CKCC/ucsf-wxs-20160318.14.input.txt Samples received in the inbox
20160321 CKCC/ucsf-rnaseq-20160318.17.input.txt Entered
20160322 CKCC/ucsf-rnaseq-20160318.17.input.txt Failed on two samples: one missing (md5sum only), one incomplete fastq
20160323 CKCC/uscf-rnaseq-20160318.17.input.txt The incomplete fastq (C021_0017_RNA) reloaded and entered as a separate batch, #22 (CKCC/uscf-rnaseq-20160318.22.input.txt)
20160329 CKCC/ucsf-rnaseq-20160318.17.input.txt The missing sample was uploaded by requester, processed, and completed. Results communicated.
20160329 CKCC/ucsf-rnaseq-20160318.17.input.txt Completed
20160318 WCDT/medbook_UCLA_RNA-seq.20160110.20 Reported as done by Paul Lloyd
20160321 CKCC/ckcc_PNOC_WXS.20160301.21 Alignment work by Paul. Previously named ckcc_PNOC_WXS.20160301.14.input.txt.
20160323 CKCC/uscf-rnaseq-20160318.22.input.txt Entered
20160328 CKCC/uscf-rnaseq-20160318.22.input.txt Uploaded
20160328 CKCC/uscf-rnaseq-20160318.22.input.txt Completed
20160323 USC/CTC.Stage2And3.rnaseq.20160323.23.input.txt Entered
20160328 USC/CTC.Stage2And3.rnaseq.20160323.23.input.txt Copied and deleted input files
20160411 USC/CTC.Stage2And3.rnaseq.20160323.23.input.txt Moved inputs to new location; started run
20160412 USC/CTC.Stage2And3.rnaseq.20160323.23.input.txt Completed. Two failed samples: Sample_78956CTC (one incomplete R2 fastq) and JL09182014 (unpacks into multi sample directory structure with merged and single fastq files)
20160417 CKCC/stanford-rnaseq-20160417.35.input.txt Entered
20160418 CKCC/stanford-rnaseq-20160417.35.input.txt Copied files; started run
20160418 CKCC/stanford-rnaseq-20160417.35.input.txt Completed
20160520 CKCC/choc-rnaseq-20160519.40.input.txt Entered
20160520 CKCC/choc-rnaseq-20160519.40.input.txt tarred fastq files; ran
20160520 CKCC/choc-rnaseq-20160519.40.input.txt 8 samples finished; one failed. Started rerun.
20160520 CKCC/choc-rnaseq-20160519.40.input.txt Completed
20160525 WCDT/oicr.42.input.txt Entered
20160531 WCDT/oicr.42.input.txt Started
20160601 WCDT/oicr.42.input.txt 25 samples finished, 7 failed due to naming issues. Started rerun
20160601 WCDT/oicr.42.input.txt Completed
20160601 WCDT/oicr.42.input.txt Output URLs delivered to Ted, Robert, Ellen, Teo
20160602 ISPY2/ispy2.20160602.29.input.txt Entered
20160606 ISPY2/ispy2.20160602.29.input.txt All files received
20160607 ISPY2/ispy2.20160602.29.input.txt Started
20160608 ISPY2/ispy2.20160602.29.input.txt 164 of 166 finished, restarted last two samples
20160613 ISPY/ispy2.20160602.29.input.txt All but one sample has been run. That one sample is being restarted as a single-sample batch.
20160613 ISPY2/ispy2.20160613.46.input.txt Entered
20160614 ISPY2/ispy2.20160613.46.input.txt Started and Completed
20160614 ISPY2/ispy2.20160613.46.input.txt Data returned to the collaborator, Denise Wolf
20160613 USC/CTC.Stage2And3.rnaseq.20160613.47.input.txt Entered
20160614 USC/CTC.Stage2And3.rnaseq.20160613.47.input.txt Started
20160615 USC/CTC.Stage2And3.rnaseq.20160613.47.input.txt 14 of 17 finished, remaining 3 are corrupted fastq
20160616 USC/CTC.Stage2And3.rnaseq.20160613.47.input.txt Data returned to the collaborator, Julie Lang
20160617 USC/CTC.Stage2And3.rnaseq.20160617.48.input.txt Entered
20160617 USC/CTC.Stage4.rnaseq.20160617.49.input.txt Entered
20160622 USC/CTC.Stage4.rnaseq.20160617.49.input.txt Started
20160622 USC/CTC.Stage4.rnaseq.20160617.49.input.txt Completed
20160629 CKCC/all.rnaseq.bam.redo.20160629.50.input.txt Entered
20160630 CKCC/all.rnaseq.bam.redo.20160629.50.input.txt Started
20160701 CKCC/all.rnaseq.bam.redo.20160629.50.input.txt 55 of 74 finished
20160705 CKCC/all.rnaseq.bam.redo.20160629.50.input.txt Corrected input, restarted
20160706 CKCC/all.rnaseq.bam.redo.20160629.50.input.txt 68 of 74 finished, corrected input, restarted
20160707 CKCC/all.rnaseq.bam.redo.20160629.50.input.txt Completed
20160706 CKCC/stanford-rnaseq-20160706.51.input.txt Entered
20160706 CKCC/stanford-rnaseq-20160706.51.input.txt Started
20160707 CKCC/stanford-rnaseq-20160706.51.input.txt Completed
20160718 WCDT/medbook_UCSF_WXS.20160707.52.input.txt Entered
20160719 WCDT/medbook_UCSF_WXS.20160707.52.input.txt Found truncated files
20160721 WCDT/medbook_UCSF_WXS.20160707.52.input.txt Restarted run with remaining files
20160721 WCDT/medbook_UCSF_WXS.20160707.52.input.txt Finished run
20160714 WCDT/medbook_UCSF_RNA-seq.20160714.53.input.txt Entered
20160718 WCDT/medbook_UCSF_RNA-seq.20160714.53.input.txt Started
20160719 WCDT/medbook_UCSF_RNA-seq.20160714.53.input.txt Completed
20160720 WCDT/medbook_UCSF_RNA-seq.20160714.53.input.txt Must rerun with different pipeline; added samples
20160719 CKCC/stanford-rnaseq-20160719.68.input.txt Entered
20160829 CKCC/stanford-rnaseq-20160829.73.input.txt Entered
20160831 CKCC/stanford-rnaseq-20160829.73.input.txt Started
20160901 CKCC/stanford-rnaseq-20160829.73.input.txt Restarted (hardware issue)
20160902 CKCC/stanford-rnaseq-20160829.73.input.txt 7 of 12 finished, remaining 5 have fastq naming issues
20160902 CKCC/stanford-rnaseq-20160902.73.input.txt Corrected inputs (note new filename)
20160906 CKCC/stanford-rnaseq-20160902.73.input.txt Restarted
20160907 CKCC/stanford-rnaseq-20160902.73.input.txt Completed
20160830 CKCC/ckcc-SRA-rnaseq-20160830.75.txt Entered
20160831 CKCC/ckcc-SRA-rnaseq-20160830.75 Issues with files submitted. Closed
20160831 CKCC/Datasets-rnaseq-batch77.input.txt Entered
20160906 CKCC/Datasets-rnaseq-batch77.input.txt Data received. Started.
20160907 CKCC/Datasets-rnaseq-batch77.input.txt 4 of 35 inputs finished, the rest failed without info
20160908 CKCC/Datasets-rnaseq-batch77.input.txt Single sample tested on docker container, works
20160912 CKCC/Datasets-rnaseq-batch77.input.txt Restarted run, toil errors
20160914 CKCC/Datasets-rnaseq-batch77.input.txt Several restarts resulted in 30 of 31 files
20160916 CKCC/Datasets-rnaseq-batch77.input.txt Finished run
20160903 WCDT/medbook_UCSF_WXS.20160903.79.input.txt Created placeholder input file
20160908 WCDT/medbook_UCSF_WXS.20160903.79.input.txt Received data; asked submitter for more info
20160918 WCDT/medbook_UCSF_WXS.20160903.79.input.txt Received info
20160919 WCDT/medbook_UCSF_WXS.20160903.79.input.txt Started run
20160920 WCDT/medbook_UCSF_WXS.20160903.79.input.txt Completed