Job ID = 16439754 SRX = SRX14894243 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2022-08-02T07:06:44 prefetch.2.10.7: 1) Downloading 'SRR18795778'... 2022-08-02T07:06:44 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T07:07:57 prefetch.2.10.7: HTTPS download succeed 2022-08-02T07:07:57 prefetch.2.10.7: 1) 'SRR18795778' was downloaded successfully 2022-08-02T07:07:57 prefetch.2.10.7: 'SRR18795778' has 0 unresolved dependencies Read 49424069 spots for SRR18795778/SRR18795778.sra Written 49424069 spots for SRR18795778/SRR18795778.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439984 ("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: 00:13:18 49424069 reads; of these: 49424069 (100.00%) were unpaired; of these: 19921634 (40.31%) aligned 0 times 24188401 (48.94%) aligned exactly 1 time 5314034 (10.75%) aligned >1 times 59.69% overall alignment rate Time searching: 00:13:18 Overall time: 00:13:18 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] 16435827 / 29502435 = 0.5571 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:33:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.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 @ Tue, 02 Aug 2022 16:33:55: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:33:55: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:34:04: 1000000 INFO @ Tue, 02 Aug 2022 16:34:13: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:34:22: 3000000 INFO @ Tue, 02 Aug 2022 16:34:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.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 @ Tue, 02 Aug 2022 16:34:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:34:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:34:33: 4000000 INFO @ Tue, 02 Aug 2022 16:34:33: 1000000 INFO @ Tue, 02 Aug 2022 16:34:43: 5000000 INFO @ Tue, 02 Aug 2022 16:34:43: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:34:53: 3000000 INFO @ Tue, 02 Aug 2022 16:34:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.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 @ Tue, 02 Aug 2022 16:34:53: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:34:53: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:34:53: 6000000 INFO @ Tue, 02 Aug 2022 16:35:03: 1000000 INFO @ Tue, 02 Aug 2022 16:35:03: 4000000 INFO @ Tue, 02 Aug 2022 16:35:03: 7000000 INFO @ Tue, 02 Aug 2022 16:35:12: 2000000 INFO @ Tue, 02 Aug 2022 16:35:13: 5000000 INFO @ Tue, 02 Aug 2022 16:35:14: 8000000 INFO @ Tue, 02 Aug 2022 16:35:22: 3000000 INFO @ Tue, 02 Aug 2022 16:35:24: 6000000 INFO @ Tue, 02 Aug 2022 16:35:25: 9000000 INFO @ Tue, 02 Aug 2022 16:35:32: 4000000 INFO @ Tue, 02 Aug 2022 16:35:35: 7000000 INFO @ Tue, 02 Aug 2022 16:35:35: 10000000 INFO @ Tue, 02 Aug 2022 16:35:41: 5000000 INFO @ Tue, 02 Aug 2022 16:35:46: 11000000 INFO @ Tue, 02 Aug 2022 16:35:46: 8000000 INFO @ Tue, 02 Aug 2022 16:35:52: 6000000 INFO @ Tue, 02 Aug 2022 16:35:57: 12000000 INFO @ Tue, 02 Aug 2022 16:35:57: 9000000 INFO @ Tue, 02 Aug 2022 16:36:01: 7000000 INFO @ Tue, 02 Aug 2022 16:36:08: 13000000 INFO @ Tue, 02 Aug 2022 16:36:09: 10000000 INFO @ Tue, 02 Aug 2022 16:36:09: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:36:09: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:36:09: #1 total tags in treatment: 13066608 INFO @ Tue, 02 Aug 2022 16:36:09: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:36:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:36:09: #1 tags after filtering in treatment: 13066608 INFO @ Tue, 02 Aug 2022 16:36:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:36:09: #1 finished! INFO @ Tue, 02 Aug 2022 16:36:09: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:36:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:36:10: 8000000 INFO @ Tue, 02 Aug 2022 16:36:11: #2 number of paired peaks: 3821 INFO @ Tue, 02 Aug 2022 16:36:11: start model_add_line... INFO @ Tue, 02 Aug 2022 16:36:11: start X-correlation... INFO @ Tue, 02 Aug 2022 16:36:11: end of X-cor INFO @ Tue, 02 Aug 2022 16:36:11: #2 finished! INFO @ Tue, 02 Aug 2022 16:36:11: #2 predicted fragment length is 254 bps INFO @ Tue, 02 Aug 2022 16:36:11: #2 alternative fragment length(s) may be 254 bps INFO @ Tue, 02 Aug 2022 16:36:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.05_model.r INFO @ Tue, 02 Aug 2022 16:36:11: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:36:11: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:36:19: 11000000 INFO @ Tue, 02 Aug 2022 16:36:20: 9000000 INFO @ Tue, 02 Aug 2022 16:36:29: 12000000 INFO @ Tue, 02 Aug 2022 16:36:30: 10000000 INFO @ Tue, 02 Aug 2022 16:36:39: 11000000 INFO @ Tue, 02 Aug 2022 16:36:40: 13000000 INFO @ Tue, 02 Aug 2022 16:36:41: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:36:41: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:36:41: #1 total tags in treatment: 13066608 INFO @ Tue, 02 Aug 2022 16:36:41: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:36:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:36:41: #1 tags after filtering in treatment: 13066608 INFO @ Tue, 02 Aug 2022 16:36:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:36:41: #1 finished! INFO @ Tue, 02 Aug 2022 16:36:41: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:36:43: #2 number of paired peaks: 3821 INFO @ Tue, 02 Aug 2022 16:36:43: start model_add_line... INFO @ Tue, 02 Aug 2022 16:36:43: start X-correlation... INFO @ Tue, 02 Aug 2022 16:36:43: end of X-cor INFO @ Tue, 02 Aug 2022 16:36:43: #2 finished! INFO @ Tue, 02 Aug 2022 16:36:43: #2 predicted fragment length is 254 bps INFO @ Tue, 02 Aug 2022 16:36:43: #2 alternative fragment length(s) may be 254 bps INFO @ Tue, 02 Aug 2022 16:36:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.10_model.r INFO @ Tue, 02 Aug 2022 16:36:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:36:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:36:49: 12000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:36:58: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:36:59: 13000000 INFO @ Tue, 02 Aug 2022 16:37:00: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:37:00: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:37:00: #1 total tags in treatment: 13066608 INFO @ Tue, 02 Aug 2022 16:37:00: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:37:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:37:00: #1 tags after filtering in treatment: 13066608 INFO @ Tue, 02 Aug 2022 16:37:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:37:00: #1 finished! INFO @ Tue, 02 Aug 2022 16:37:00: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:37:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:37:02: #2 number of paired peaks: 3821 INFO @ Tue, 02 Aug 2022 16:37:02: start model_add_line... INFO @ Tue, 02 Aug 2022 16:37:02: start X-correlation... INFO @ Tue, 02 Aug 2022 16:37:02: end of X-cor INFO @ Tue, 02 Aug 2022 16:37:02: #2 finished! INFO @ Tue, 02 Aug 2022 16:37:02: #2 predicted fragment length is 254 bps INFO @ Tue, 02 Aug 2022 16:37:02: #2 alternative fragment length(s) may be 254 bps INFO @ Tue, 02 Aug 2022 16:37:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.20_model.r INFO @ Tue, 02 Aug 2022 16:37:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:37:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:37:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:37:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:37:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.05_summits.bed INFO @ Tue, 02 Aug 2022 16:37:25: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (10142 records, 4 fields): 59 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:37:31: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:37:51: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:37:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:37:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:37:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.10_summits.bed INFO @ Tue, 02 Aug 2022 16:37:56: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (8296 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:38:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:38:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:38:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894243/SRX14894243.20_summits.bed INFO @ Tue, 02 Aug 2022 16:38:15: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (6325 records, 4 fields): 49 millis CompletedMACS2peakCalling