Job ID = 14168471 SRX = SRX9730753 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 38738351 spots for SRR13301831/SRR13301831.sra Written 38738351 spots for SRR13301831/SRR13301831.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169634 ("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: 00:15:17 38738351 reads; of these: 38738351 (100.00%) were unpaired; of these: 1096413 (2.83%) aligned 0 times 30480384 (78.68%) aligned exactly 1 time 7161554 (18.49%) aligned >1 times 97.17% overall alignment rate Time searching: 00:15:17 Overall time: 00:15:17 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 16 files... [bam_rmdupse_core] 16243616 / 37641938 = 0.4315 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 @ Fri, 10 Dec 2021 19:04:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.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 @ Fri, 10 Dec 2021 19:04:28: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:04:28: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:04:36: 1000000 INFO @ Fri, 10 Dec 2021 19:04:43: 2000000 INFO @ Fri, 10 Dec 2021 19:04:50: 3000000 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 @ Fri, 10 Dec 2021 19:04:57: 4000000 INFO @ Fri, 10 Dec 2021 19:04:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.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 @ Fri, 10 Dec 2021 19:04:58: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:04:58: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:05:05: 5000000 INFO @ Fri, 10 Dec 2021 19:05:06: 1000000 INFO @ Fri, 10 Dec 2021 19:05:13: 6000000 INFO @ Fri, 10 Dec 2021 19:05:14: 2000000 INFO @ Fri, 10 Dec 2021 19:05:21: 7000000 INFO @ Fri, 10 Dec 2021 19:05:22: 3000000 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 @ Fri, 10 Dec 2021 19:05:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.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 @ Fri, 10 Dec 2021 19:05:28: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:05:28: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:05:29: 8000000 INFO @ Fri, 10 Dec 2021 19:05:30: 4000000 INFO @ Fri, 10 Dec 2021 19:05:36: 1000000 INFO @ Fri, 10 Dec 2021 19:05:37: 9000000 INFO @ Fri, 10 Dec 2021 19:05:38: 5000000 INFO @ Fri, 10 Dec 2021 19:05:44: 2000000 INFO @ Fri, 10 Dec 2021 19:05:45: 10000000 INFO @ Fri, 10 Dec 2021 19:05:46: 6000000 INFO @ Fri, 10 Dec 2021 19:05:52: 3000000 INFO @ Fri, 10 Dec 2021 19:05:53: 11000000 INFO @ Fri, 10 Dec 2021 19:05:55: 7000000 INFO @ Fri, 10 Dec 2021 19:06:01: 4000000 INFO @ Fri, 10 Dec 2021 19:06:02: 12000000 INFO @ Fri, 10 Dec 2021 19:06:03: 8000000 INFO @ Fri, 10 Dec 2021 19:06:09: 5000000 INFO @ Fri, 10 Dec 2021 19:06:10: 13000000 INFO @ Fri, 10 Dec 2021 19:06:11: 9000000 INFO @ Fri, 10 Dec 2021 19:06:18: 14000000 INFO @ Fri, 10 Dec 2021 19:06:18: 6000000 INFO @ Fri, 10 Dec 2021 19:06:19: 10000000 INFO @ Fri, 10 Dec 2021 19:06:26: 15000000 INFO @ Fri, 10 Dec 2021 19:06:27: 7000000 INFO @ Fri, 10 Dec 2021 19:06:27: 11000000 INFO @ Fri, 10 Dec 2021 19:06:34: 16000000 INFO @ Fri, 10 Dec 2021 19:06:35: 8000000 INFO @ Fri, 10 Dec 2021 19:06:36: 12000000 INFO @ Fri, 10 Dec 2021 19:06:43: 17000000 INFO @ Fri, 10 Dec 2021 19:06:43: 9000000 INFO @ Fri, 10 Dec 2021 19:06:44: 13000000 INFO @ Fri, 10 Dec 2021 19:06:51: 18000000 INFO @ Fri, 10 Dec 2021 19:06:51: 10000000 INFO @ Fri, 10 Dec 2021 19:06:52: 14000000 INFO @ Fri, 10 Dec 2021 19:06:59: 19000000 INFO @ Fri, 10 Dec 2021 19:07:00: 11000000 INFO @ Fri, 10 Dec 2021 19:07:00: 15000000 INFO @ Fri, 10 Dec 2021 19:07:07: 20000000 INFO @ Fri, 10 Dec 2021 19:07:08: 12000000 INFO @ Fri, 10 Dec 2021 19:07:08: 16000000 INFO @ Fri, 10 Dec 2021 19:07:15: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 19:07:16: 13000000 INFO @ Fri, 10 Dec 2021 19:07:17: 17000000 INFO @ Fri, 10 Dec 2021 19:07:19: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:07:19: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:07:19: #1 total tags in treatment: 21398322 INFO @ Fri, 10 Dec 2021 19:07:19: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:07:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 19:07:19: #1 tags after filtering in treatment: 21398322 INFO @ Fri, 10 Dec 2021 19:07:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:07:19: #1 finished! INFO @ Fri, 10 Dec 2021 19:07:19: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:07:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:07:22: #2 number of paired peaks: 9808 INFO @ Fri, 10 Dec 2021 19:07:22: start model_add_line... INFO @ Fri, 10 Dec 2021 19:07:22: start X-correlation... INFO @ Fri, 10 Dec 2021 19:07:22: end of X-cor INFO @ Fri, 10 Dec 2021 19:07:22: #2 finished! INFO @ Fri, 10 Dec 2021 19:07:22: #2 predicted fragment length is 208 bps INFO @ Fri, 10 Dec 2021 19:07:22: #2 alternative fragment length(s) may be 208 bps INFO @ Fri, 10 Dec 2021 19:07:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.05_model.r INFO @ Fri, 10 Dec 2021 19:07:22: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:07:22: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:07:24: 14000000 INFO @ Fri, 10 Dec 2021 19:07:24: 18000000 INFO @ Fri, 10 Dec 2021 19:07:32: 19000000 INFO @ Fri, 10 Dec 2021 19:07:33: 15000000 INFO @ Fri, 10 Dec 2021 19:07:40: 20000000 INFO @ Fri, 10 Dec 2021 19:07:41: 16000000 INFO @ Fri, 10 Dec 2021 19:07:48: 21000000 INFO @ Fri, 10 Dec 2021 19:07:50: 17000000 INFO @ Fri, 10 Dec 2021 19:07:51: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:07:51: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:07:51: #1 total tags in treatment: 21398322 INFO @ Fri, 10 Dec 2021 19:07:51: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:07:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 19:07:51: #1 tags after filtering in treatment: 21398322 INFO @ Fri, 10 Dec 2021 19:07:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:07:51: #1 finished! INFO @ Fri, 10 Dec 2021 19:07:51: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:07:54: #2 number of paired peaks: 9808 INFO @ Fri, 10 Dec 2021 19:07:54: start model_add_line... INFO @ Fri, 10 Dec 2021 19:07:54: start X-correlation... INFO @ Fri, 10 Dec 2021 19:07:54: end of X-cor INFO @ Fri, 10 Dec 2021 19:07:54: #2 finished! INFO @ Fri, 10 Dec 2021 19:07:54: #2 predicted fragment length is 208 bps INFO @ Fri, 10 Dec 2021 19:07:54: #2 alternative fragment length(s) may be 208 bps INFO @ Fri, 10 Dec 2021 19:07:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.10_model.r INFO @ Fri, 10 Dec 2021 19:07:54: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:07:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 19:07:58: 18000000 INFO @ Fri, 10 Dec 2021 19:08:06: 19000000 INFO @ Fri, 10 Dec 2021 19:08:14: 20000000 INFO @ Fri, 10 Dec 2021 19:08:23: 21000000 INFO @ Fri, 10 Dec 2021 19:08:26: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:08:26: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:08:26: #1 total tags in treatment: 21398322 INFO @ Fri, 10 Dec 2021 19:08:26: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:08:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 19:08:26: #1 tags after filtering in treatment: 21398322 INFO @ Fri, 10 Dec 2021 19:08:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:08:26: #1 finished! INFO @ Fri, 10 Dec 2021 19:08:26: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:08:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:08:29: #2 number of paired peaks: 9808 INFO @ Fri, 10 Dec 2021 19:08:29: start model_add_line... INFO @ Fri, 10 Dec 2021 19:08:29: start X-correlation... INFO @ Fri, 10 Dec 2021 19:08:29: end of X-cor INFO @ Fri, 10 Dec 2021 19:08:29: #2 finished! INFO @ Fri, 10 Dec 2021 19:08:29: #2 predicted fragment length is 208 bps INFO @ Fri, 10 Dec 2021 19:08:29: #2 alternative fragment length(s) may be 208 bps INFO @ Fri, 10 Dec 2021 19:08:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.20_model.r INFO @ Fri, 10 Dec 2021 19:08:29: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:08:29: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:08:46: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:09:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.05_peaks.xls INFO @ Fri, 10 Dec 2021 19:09:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:09:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.05_summits.bed INFO @ Fri, 10 Dec 2021 19:09:08: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (10417 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:09:18: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:09:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.10_peaks.xls INFO @ Fri, 10 Dec 2021 19:09:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:09:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.10_summits.bed INFO @ Fri, 10 Dec 2021 19:09:39: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8912 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:09:53: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:10:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.20_peaks.xls INFO @ Fri, 10 Dec 2021 19:10:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:10:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730753/SRX9730753.20_summits.bed INFO @ Fri, 10 Dec 2021 19:10:14: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (6859 records, 4 fields): 92 millis CompletedMACS2peakCalling