Job ID = 14172335 SRX = SRX7434118 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12936402 spots for SRR10759884/SRR10759884.sra Written 12936402 spots for SRR10759884/SRR10759884.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172804 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:05 12936402 reads; of these: 12936402 (100.00%) were unpaired; of these: 1326987 (10.26%) aligned 0 times 9157006 (70.78%) aligned exactly 1 time 2452409 (18.96%) aligned >1 times 89.74% overall alignment rate Time searching: 00:05:05 Overall time: 00:05:05 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 6671428 / 11609415 = 0.5747 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:18:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 15:18:08: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:18:08: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:18:19: 1000000 INFO @ Sat, 11 Dec 2021 15:18:31: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:18:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 15:18:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:18:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:18:43: 3000000 INFO @ Sat, 11 Dec 2021 15:18:50: 1000000 INFO @ Sat, 11 Dec 2021 15:18:56: 4000000 INFO @ Sat, 11 Dec 2021 15:19:03: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:19:07: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:19:07: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:19:07: #1 total tags in treatment: 4937987 INFO @ Sat, 11 Dec 2021 15:19:07: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:19:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:19:07: #1 tags after filtering in treatment: 4937987 INFO @ Sat, 11 Dec 2021 15:19:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:19:07: #1 finished! INFO @ Sat, 11 Dec 2021 15:19:07: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:19:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:19:08: #2 number of paired peaks: 3802 INFO @ Sat, 11 Dec 2021 15:19:08: start model_add_line... INFO @ Sat, 11 Dec 2021 15:19:08: start X-correlation... INFO @ Sat, 11 Dec 2021 15:19:08: end of X-cor INFO @ Sat, 11 Dec 2021 15:19:08: #2 finished! INFO @ Sat, 11 Dec 2021 15:19:08: #2 predicted fragment length is 213 bps INFO @ Sat, 11 Dec 2021 15:19:08: #2 alternative fragment length(s) may be 213 bps INFO @ Sat, 11 Dec 2021 15:19:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.05_model.r INFO @ Sat, 11 Dec 2021 15:19:08: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:19:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:19:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 11 Dec 2021 15:19:08: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:19:08: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:19:16: 3000000 INFO @ Sat, 11 Dec 2021 15:19:21: 1000000 INFO @ Sat, 11 Dec 2021 15:19:27: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:19:28: 4000000 INFO @ Sat, 11 Dec 2021 15:19:34: 2000000 INFO @ Sat, 11 Dec 2021 15:19:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:19:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:19:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.05_summits.bed INFO @ Sat, 11 Dec 2021 15:19:38: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (5317 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:19:40: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:19:40: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:19:40: #1 total tags in treatment: 4937987 INFO @ Sat, 11 Dec 2021 15:19:40: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:19:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:19:40: #1 tags after filtering in treatment: 4937987 INFO @ Sat, 11 Dec 2021 15:19:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:19:40: #1 finished! INFO @ Sat, 11 Dec 2021 15:19:40: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:19:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:19:41: #2 number of paired peaks: 3802 INFO @ Sat, 11 Dec 2021 15:19:41: start model_add_line... INFO @ Sat, 11 Dec 2021 15:19:41: start X-correlation... INFO @ Sat, 11 Dec 2021 15:19:41: end of X-cor INFO @ Sat, 11 Dec 2021 15:19:41: #2 finished! INFO @ Sat, 11 Dec 2021 15:19:41: #2 predicted fragment length is 213 bps INFO @ Sat, 11 Dec 2021 15:19:41: #2 alternative fragment length(s) may be 213 bps INFO @ Sat, 11 Dec 2021 15:19:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.10_model.r INFO @ Sat, 11 Dec 2021 15:19:41: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:19:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:19:46: 3000000 INFO @ Sat, 11 Dec 2021 15:19:58: 4000000 INFO @ Sat, 11 Dec 2021 15:20:00: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:20:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:20:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:20:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.10_summits.bed INFO @ Sat, 11 Dec 2021 15:20:10: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (4283 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:20:13: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:20:13: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:20:13: #1 total tags in treatment: 4937987 INFO @ Sat, 11 Dec 2021 15:20:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:20:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:20:13: #1 tags after filtering in treatment: 4937987 INFO @ Sat, 11 Dec 2021 15:20:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:20:13: #1 finished! INFO @ Sat, 11 Dec 2021 15:20:13: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:20:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:20:13: #2 number of paired peaks: 3802 INFO @ Sat, 11 Dec 2021 15:20:13: start model_add_line... INFO @ Sat, 11 Dec 2021 15:20:14: start X-correlation... INFO @ Sat, 11 Dec 2021 15:20:14: end of X-cor INFO @ Sat, 11 Dec 2021 15:20:14: #2 finished! INFO @ Sat, 11 Dec 2021 15:20:14: #2 predicted fragment length is 213 bps INFO @ Sat, 11 Dec 2021 15:20:14: #2 alternative fragment length(s) may be 213 bps INFO @ Sat, 11 Dec 2021 15:20:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.20_model.r INFO @ Sat, 11 Dec 2021 15:20:14: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:20:14: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:20:32: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:20:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:20:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:20:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434118/SRX7434118.20_summits.bed INFO @ Sat, 11 Dec 2021 15:20:42: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3257 records, 4 fields): 23 millis CompletedMACS2peakCalling