Job ID = 14167127 SRX = SRX4712949 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22371281 spots for SRR7874079/SRR7874079.sra Written 22371281 spots for SRR7874079/SRR7874079.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167585 ("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: 00:08:10 22371281 reads; of these: 22371281 (100.00%) were unpaired; of these: 1049811 (4.69%) aligned 0 times 15899064 (71.07%) aligned exactly 1 time 5422406 (24.24%) aligned >1 times 95.31% overall alignment rate Time searching: 00:08:10 Overall time: 00:08:10 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 12 files... [bam_rmdupse_core] 15058772 / 21321470 = 0.7063 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 10:27:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.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 10:27:51: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:27:51: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:27:57: 1000000 INFO @ Fri, 10 Dec 2021 10:28:03: 2000000 INFO @ Fri, 10 Dec 2021 10:28:10: 3000000 INFO @ Fri, 10 Dec 2021 10:28:16: 4000000 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 10:28:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.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 10:28:21: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:28:21: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:28:23: 5000000 INFO @ Fri, 10 Dec 2021 10:28:27: 1000000 INFO @ Fri, 10 Dec 2021 10:28:29: 6000000 INFO @ Fri, 10 Dec 2021 10:28:31: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:28:31: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:28:31: #1 total tags in treatment: 6262698 INFO @ Fri, 10 Dec 2021 10:28:31: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:28:31: #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 10:28:31: #1 tags after filtering in treatment: 6262698 INFO @ Fri, 10 Dec 2021 10:28:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:28:31: #1 finished! INFO @ Fri, 10 Dec 2021 10:28:31: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:28:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:28:32: #2 number of paired peaks: 1378 INFO @ Fri, 10 Dec 2021 10:28:32: start model_add_line... INFO @ Fri, 10 Dec 2021 10:28:32: start X-correlation... INFO @ Fri, 10 Dec 2021 10:28:32: end of X-cor INFO @ Fri, 10 Dec 2021 10:28:32: #2 finished! INFO @ Fri, 10 Dec 2021 10:28:32: #2 predicted fragment length is 67 bps INFO @ Fri, 10 Dec 2021 10:28:32: #2 alternative fragment length(s) may be 67 bps INFO @ Fri, 10 Dec 2021 10:28:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.05_model.r WARNING @ Fri, 10 Dec 2021 10:28:32: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 10:28:32: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Fri, 10 Dec 2021 10:28:32: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 10:28:32: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:28:32: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:28:34: 2000000 INFO @ Fri, 10 Dec 2021 10:28:41: 3000000 INFO @ Fri, 10 Dec 2021 10:28:46: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:28:47: 4000000 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 10:28:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.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 10:28:51: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:28:51: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:28:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:28:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:28:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.05_summits.bed INFO @ Fri, 10 Dec 2021 10:28:54: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4317 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:28:54: 5000000 INFO @ Fri, 10 Dec 2021 10:28:58: 1000000 INFO @ Fri, 10 Dec 2021 10:29:01: 6000000 INFO @ Fri, 10 Dec 2021 10:29:03: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:29:03: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:29:03: #1 total tags in treatment: 6262698 INFO @ Fri, 10 Dec 2021 10:29:03: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:29:03: #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 10:29:03: #1 tags after filtering in treatment: 6262698 INFO @ Fri, 10 Dec 2021 10:29:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:29:03: #1 finished! INFO @ Fri, 10 Dec 2021 10:29:03: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:29:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:29:03: #2 number of paired peaks: 1378 INFO @ Fri, 10 Dec 2021 10:29:03: start model_add_line... INFO @ Fri, 10 Dec 2021 10:29:03: start X-correlation... INFO @ Fri, 10 Dec 2021 10:29:03: end of X-cor INFO @ Fri, 10 Dec 2021 10:29:03: #2 finished! INFO @ Fri, 10 Dec 2021 10:29:03: #2 predicted fragment length is 67 bps INFO @ Fri, 10 Dec 2021 10:29:03: #2 alternative fragment length(s) may be 67 bps INFO @ Fri, 10 Dec 2021 10:29:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.10_model.r WARNING @ Fri, 10 Dec 2021 10:29:03: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 10:29:03: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Fri, 10 Dec 2021 10:29:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 10:29:03: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:29:03: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:29:05: 2000000 INFO @ Fri, 10 Dec 2021 10:29:11: 3000000 INFO @ Fri, 10 Dec 2021 10:29:18: 4000000 INFO @ Fri, 10 Dec 2021 10:29:18: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:29:25: 5000000 INFO @ Fri, 10 Dec 2021 10:29:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:29:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:29:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.10_summits.bed INFO @ Fri, 10 Dec 2021 10:29:26: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2782 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:29:31: 6000000 INFO @ Fri, 10 Dec 2021 10:29:33: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:29:33: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:29:33: #1 total tags in treatment: 6262698 INFO @ Fri, 10 Dec 2021 10:29:33: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:29:33: #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 10:29:33: #1 tags after filtering in treatment: 6262698 INFO @ Fri, 10 Dec 2021 10:29:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:29:33: #1 finished! INFO @ Fri, 10 Dec 2021 10:29:33: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:29:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:29:34: #2 number of paired peaks: 1378 INFO @ Fri, 10 Dec 2021 10:29:34: start model_add_line... INFO @ Fri, 10 Dec 2021 10:29:34: start X-correlation... INFO @ Fri, 10 Dec 2021 10:29:34: end of X-cor INFO @ Fri, 10 Dec 2021 10:29:34: #2 finished! INFO @ Fri, 10 Dec 2021 10:29:34: #2 predicted fragment length is 67 bps INFO @ Fri, 10 Dec 2021 10:29:34: #2 alternative fragment length(s) may be 67 bps INFO @ Fri, 10 Dec 2021 10:29:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.20_model.r WARNING @ Fri, 10 Dec 2021 10:29:34: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 10:29:34: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Fri, 10 Dec 2021 10:29:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 10:29:34: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:29:34: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:29:48: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:29:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:29:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:29:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712949/SRX4712949.20_summits.bed INFO @ Fri, 10 Dec 2021 10:29:55: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (1764 records, 4 fields): 4 millis CompletedMACS2peakCalling