Job ID = 16439742 SRX = SRX14894232 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2022-08-02T07:04:09 prefetch.2.10.7: 1) Downloading 'SRR18795789'... 2022-08-02T07:04:09 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T07:05:44 prefetch.2.10.7: HTTPS download succeed 2022-08-02T07:05:44 prefetch.2.10.7: 1) 'SRR18795789' was downloaded successfully 2022-08-02T07:05:44 prefetch.2.10.7: 'SRR18795789' has 0 unresolved dependencies Read 44489333 spots for SRR18795789/SRR18795789.sra Written 44489333 spots for SRR18795789/SRR18795789.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439994 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:18:13 44489333 reads; of these: 44489333 (100.00%) were unpaired; of these: 4178920 (9.39%) aligned 0 times 32993304 (74.16%) aligned exactly 1 time 7317109 (16.45%) aligned >1 times 90.61% overall alignment rate Time searching: 00:18:14 Overall time: 00:18:14 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 20 files... [bam_rmdupse_core] 31040353 / 40310413 = 0.7700 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 16:38:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.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 16:38:02: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:38:02: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:38:13: 1000000 INFO @ Tue, 02 Aug 2022 16:38:25: 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 16:38:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.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 16:38:30: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:38:30: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:38:35: 3000000 INFO @ Tue, 02 Aug 2022 16:38:39: 1000000 INFO @ Tue, 02 Aug 2022 16:38:46: 4000000 INFO @ Tue, 02 Aug 2022 16:38:49: 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 16:38:58: 5000000 INFO @ Tue, 02 Aug 2022 16:38:58: 3000000 INFO @ Tue, 02 Aug 2022 16:39:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.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 16:39:00: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:39:00: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:39:08: 4000000 INFO @ Tue, 02 Aug 2022 16:39:09: 6000000 INFO @ Tue, 02 Aug 2022 16:39:12: 1000000 INFO @ Tue, 02 Aug 2022 16:39:18: 5000000 INFO @ Tue, 02 Aug 2022 16:39:21: 7000000 INFO @ Tue, 02 Aug 2022 16:39:23: 2000000 INFO @ Tue, 02 Aug 2022 16:39:28: 6000000 INFO @ Tue, 02 Aug 2022 16:39:32: 8000000 INFO @ Tue, 02 Aug 2022 16:39:34: 3000000 INFO @ Tue, 02 Aug 2022 16:39:37: 7000000 INFO @ Tue, 02 Aug 2022 16:39:43: 9000000 INFO @ Tue, 02 Aug 2022 16:39:44: 4000000 INFO @ Tue, 02 Aug 2022 16:39:46: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:39:46: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:39:46: #1 total tags in treatment: 9270060 INFO @ Tue, 02 Aug 2022 16:39:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:39:46: #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 16:39:46: #1 tags after filtering in treatment: 9270060 INFO @ Tue, 02 Aug 2022 16:39:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:39:46: #1 finished! INFO @ Tue, 02 Aug 2022 16:39:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:39:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:39:46: 8000000 INFO @ Tue, 02 Aug 2022 16:39:47: #2 number of paired peaks: 4582 INFO @ Tue, 02 Aug 2022 16:39:47: start model_add_line... INFO @ Tue, 02 Aug 2022 16:39:47: start X-correlation... INFO @ Tue, 02 Aug 2022 16:39:48: end of X-cor INFO @ Tue, 02 Aug 2022 16:39:48: #2 finished! INFO @ Tue, 02 Aug 2022 16:39:48: #2 predicted fragment length is 246 bps INFO @ Tue, 02 Aug 2022 16:39:48: #2 alternative fragment length(s) may be 246 bps INFO @ Tue, 02 Aug 2022 16:39:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.05_model.r INFO @ Tue, 02 Aug 2022 16:39:48: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:39:48: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:39:55: 5000000 INFO @ Tue, 02 Aug 2022 16:39:56: 9000000 INFO @ Tue, 02 Aug 2022 16:39:58: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:39:58: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:39:58: #1 total tags in treatment: 9270060 INFO @ Tue, 02 Aug 2022 16:39:58: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:39:58: #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 16:39:59: #1 tags after filtering in treatment: 9270060 INFO @ Tue, 02 Aug 2022 16:39:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:39:59: #1 finished! INFO @ Tue, 02 Aug 2022 16:39:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:39:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:40:00: #2 number of paired peaks: 4582 INFO @ Tue, 02 Aug 2022 16:40:00: start model_add_line... INFO @ Tue, 02 Aug 2022 16:40:00: start X-correlation... INFO @ Tue, 02 Aug 2022 16:40:00: end of X-cor INFO @ Tue, 02 Aug 2022 16:40:00: #2 finished! INFO @ Tue, 02 Aug 2022 16:40:00: #2 predicted fragment length is 246 bps INFO @ Tue, 02 Aug 2022 16:40:00: #2 alternative fragment length(s) may be 246 bps INFO @ Tue, 02 Aug 2022 16:40:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.10_model.r INFO @ Tue, 02 Aug 2022 16:40:00: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:40:00: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:40:06: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:40:17: 7000000 INFO @ Tue, 02 Aug 2022 16:40:26: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:40:28: 8000000 INFO @ Tue, 02 Aug 2022 16:40:38: 9000000 INFO @ Tue, 02 Aug 2022 16:40:38: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:40:41: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:40:41: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:40:41: #1 total tags in treatment: 9270060 INFO @ Tue, 02 Aug 2022 16:40:41: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:40:41: #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 16:40:41: #1 tags after filtering in treatment: 9270060 INFO @ Tue, 02 Aug 2022 16:40:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:40:41: #1 finished! INFO @ Tue, 02 Aug 2022 16:40:41: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:40:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:40:43: #2 number of paired peaks: 4582 INFO @ Tue, 02 Aug 2022 16:40:43: start model_add_line... INFO @ Tue, 02 Aug 2022 16:40:43: start X-correlation... INFO @ Tue, 02 Aug 2022 16:40:43: end of X-cor INFO @ Tue, 02 Aug 2022 16:40:43: #2 finished! INFO @ Tue, 02 Aug 2022 16:40:43: #2 predicted fragment length is 246 bps INFO @ Tue, 02 Aug 2022 16:40:43: #2 alternative fragment length(s) may be 246 bps INFO @ Tue, 02 Aug 2022 16:40:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.20_model.r INFO @ Tue, 02 Aug 2022 16:40:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:40:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:40:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:40:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:40:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.05_summits.bed INFO @ Tue, 02 Aug 2022 16:40:45: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (7282 records, 4 fields): 79 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:40:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:40:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:40:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.10_summits.bed INFO @ Tue, 02 Aug 2022 16:40:57: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (5800 records, 4 fields): 82 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:41:22: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:41:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:41:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:41:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894232/SRX14894232.20_summits.bed INFO @ Tue, 02 Aug 2022 16:41:40: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (4336 records, 4 fields): 53 millis CompletedMACS2peakCalling