Job ID = 12265282 SRX = SRX5010741 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 26542697 spots for SRR8191166/SRR8191166.sra Written 26542697 spots for SRR8191166/SRR8191166.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265423 ("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: 00:07:15 26542697 reads; of these: 26542697 (100.00%) were unpaired; of these: 966268 (3.64%) aligned 0 times 15973833 (60.18%) aligned exactly 1 time 9602596 (36.18%) aligned >1 times 96.36% overall alignment rate Time searching: 00:07:15 Overall time: 00:07:15 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] 14325895 / 25576429 = 0.5601 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:36:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.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, 03 Apr 2021 06:36:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:36:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:36:47: 1000000 INFO @ Sat, 03 Apr 2021 06:36:51: 2000000 INFO @ Sat, 03 Apr 2021 06:36:56: 3000000 INFO @ Sat, 03 Apr 2021 06:37:00: 4000000 INFO @ Sat, 03 Apr 2021 06:37:05: 5000000 INFO @ Sat, 03 Apr 2021 06:37:09: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:37:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.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, 03 Apr 2021 06:37:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:37:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:37:14: 7000000 INFO @ Sat, 03 Apr 2021 06:37:17: 1000000 INFO @ Sat, 03 Apr 2021 06:37:19: 8000000 INFO @ Sat, 03 Apr 2021 06:37:21: 2000000 INFO @ Sat, 03 Apr 2021 06:37:23: 9000000 INFO @ Sat, 03 Apr 2021 06:37:26: 3000000 INFO @ Sat, 03 Apr 2021 06:37:28: 10000000 INFO @ Sat, 03 Apr 2021 06:37:30: 4000000 INFO @ Sat, 03 Apr 2021 06:37:32: 11000000 INFO @ Sat, 03 Apr 2021 06:37:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:37:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:37:33: #1 total tags in treatment: 11250534 INFO @ Sat, 03 Apr 2021 06:37:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:37:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:37:34: #1 tags after filtering in treatment: 11250534 INFO @ Sat, 03 Apr 2021 06:37:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:37:34: #1 finished! INFO @ Sat, 03 Apr 2021 06:37:34: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:37:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:37:35: #2 number of paired peaks: 2101 INFO @ Sat, 03 Apr 2021 06:37:35: start model_add_line... INFO @ Sat, 03 Apr 2021 06:37:35: start X-correlation... INFO @ Sat, 03 Apr 2021 06:37:35: end of X-cor INFO @ Sat, 03 Apr 2021 06:37:35: #2 finished! INFO @ Sat, 03 Apr 2021 06:37:35: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 06:37:35: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 06:37:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.05_model.r WARNING @ Sat, 03 Apr 2021 06:37:35: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:37:35: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 06:37:35: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:37:35: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:37:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:37:35: 5000000 INFO @ Sat, 03 Apr 2021 06:37:40: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:37:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.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, 03 Apr 2021 06:37:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:37:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:37:44: 7000000 INFO @ Sat, 03 Apr 2021 06:37:47: 1000000 INFO @ Sat, 03 Apr 2021 06:37:49: 8000000 INFO @ Sat, 03 Apr 2021 06:37:52: 2000000 INFO @ Sat, 03 Apr 2021 06:37:54: 9000000 INFO @ Sat, 03 Apr 2021 06:37:57: 3000000 INFO @ Sat, 03 Apr 2021 06:37:59: 10000000 INFO @ Sat, 03 Apr 2021 06:38:00: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:38:02: 4000000 INFO @ Sat, 03 Apr 2021 06:38:03: 11000000 INFO @ Sat, 03 Apr 2021 06:38:04: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:38:04: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:38:04: #1 total tags in treatment: 11250534 INFO @ Sat, 03 Apr 2021 06:38:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:38:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:38:05: #1 tags after filtering in treatment: 11250534 INFO @ Sat, 03 Apr 2021 06:38:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:38:05: #1 finished! INFO @ Sat, 03 Apr 2021 06:38:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:38:06: #2 number of paired peaks: 2101 INFO @ Sat, 03 Apr 2021 06:38:06: start model_add_line... INFO @ Sat, 03 Apr 2021 06:38:06: start X-correlation... INFO @ Sat, 03 Apr 2021 06:38:06: end of X-cor INFO @ Sat, 03 Apr 2021 06:38:06: #2 finished! INFO @ Sat, 03 Apr 2021 06:38:06: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 06:38:06: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 06:38:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.10_model.r WARNING @ Sat, 03 Apr 2021 06:38:06: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:38:06: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 06:38:06: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:38:06: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:38:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:38:06: 5000000 INFO @ Sat, 03 Apr 2021 06:38:11: 6000000 INFO @ Sat, 03 Apr 2021 06:38:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:38:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:38:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.05_summits.bed INFO @ Sat, 03 Apr 2021 06:38:14: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13567 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:38:16: 7000000 INFO @ Sat, 03 Apr 2021 06:38:22: 8000000 INFO @ Sat, 03 Apr 2021 06:38:27: 9000000 INFO @ Sat, 03 Apr 2021 06:38:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:38:32: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:38:37: 11000000 INFO @ Sat, 03 Apr 2021 06:38:38: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:38:38: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:38:38: #1 total tags in treatment: 11250534 INFO @ Sat, 03 Apr 2021 06:38:38: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:38:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:38:38: #1 tags after filtering in treatment: 11250534 INFO @ Sat, 03 Apr 2021 06:38:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:38:38: #1 finished! INFO @ Sat, 03 Apr 2021 06:38:38: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:38:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:38:39: #2 number of paired peaks: 2101 INFO @ Sat, 03 Apr 2021 06:38:39: start model_add_line... INFO @ Sat, 03 Apr 2021 06:38:39: start X-correlation... INFO @ Sat, 03 Apr 2021 06:38:39: end of X-cor INFO @ Sat, 03 Apr 2021 06:38:39: #2 finished! INFO @ Sat, 03 Apr 2021 06:38:39: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 06:38:39: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 06:38:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.20_model.r WARNING @ Sat, 03 Apr 2021 06:38:39: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:38:39: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 06:38:39: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:38:39: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:38:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:38:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:38:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:38:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.10_summits.bed INFO @ Sat, 03 Apr 2021 06:38:44: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7743 records, 4 fields): 15 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:39:05: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:39:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:39:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:39:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010741/SRX5010741.20_summits.bed INFO @ Sat, 03 Apr 2021 06:39:17: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (2911 records, 4 fields): 4 millis CompletedMACS2peakCalling