Job ID = 12265307 SRX = SRX5010766 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 33874296 spots for SRR8191191/SRR8191191.sra Written 33874296 spots for SRR8191191/SRR8191191.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265472 ("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: 00:09:05 33874296 reads; of these: 33874296 (100.00%) were unpaired; of these: 1277564 (3.77%) aligned 0 times 17497333 (51.65%) aligned exactly 1 time 15099399 (44.57%) aligned >1 times 96.23% overall alignment rate Time searching: 00:09:05 Overall time: 00:09:05 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] 20700206 / 32596732 = 0.6350 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 06:47:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.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 06:47:24: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:47:24: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:47:29: 1000000 INFO @ Sat, 03 Apr 2021 06:47:34: 2000000 INFO @ Sat, 03 Apr 2021 06:47:40: 3000000 INFO @ Sat, 03 Apr 2021 06:47:45: 4000000 INFO @ Sat, 03 Apr 2021 06:47:50: 5000000 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 06:47:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.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 06:47:54: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:47:54: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:47:56: 6000000 INFO @ Sat, 03 Apr 2021 06:47:59: 1000000 INFO @ Sat, 03 Apr 2021 06:48:01: 7000000 INFO @ Sat, 03 Apr 2021 06:48:05: 2000000 INFO @ Sat, 03 Apr 2021 06:48:07: 8000000 INFO @ Sat, 03 Apr 2021 06:48:10: 3000000 INFO @ Sat, 03 Apr 2021 06:48:12: 9000000 INFO @ Sat, 03 Apr 2021 06:48:16: 4000000 INFO @ Sat, 03 Apr 2021 06:48:18: 10000000 INFO @ Sat, 03 Apr 2021 06:48:22: 5000000 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 06:48:23: 11000000 INFO @ Sat, 03 Apr 2021 06:48:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.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 06:48:24: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:48:24: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:48:27: 6000000 INFO @ Sat, 03 Apr 2021 06:48:28: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:48:28: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:48:28: #1 total tags in treatment: 11896526 INFO @ Sat, 03 Apr 2021 06:48:28: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:48:28: #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 06:48:28: #1 tags after filtering in treatment: 11896526 INFO @ Sat, 03 Apr 2021 06:48:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:48:28: #1 finished! INFO @ Sat, 03 Apr 2021 06:48:28: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:48:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:48:29: #2 number of paired peaks: 2062 INFO @ Sat, 03 Apr 2021 06:48:29: start model_add_line... INFO @ Sat, 03 Apr 2021 06:48:29: 1000000 INFO @ Sat, 03 Apr 2021 06:48:29: start X-correlation... INFO @ Sat, 03 Apr 2021 06:48:29: end of X-cor INFO @ Sat, 03 Apr 2021 06:48:29: #2 finished! INFO @ Sat, 03 Apr 2021 06:48:29: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:48:29: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:48:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.05_model.r WARNING @ Sat, 03 Apr 2021 06:48:29: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:48:29: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:48:29: #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 06:48:29: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:48:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:48:33: 7000000 INFO @ Sat, 03 Apr 2021 06:48:35: 2000000 INFO @ Sat, 03 Apr 2021 06:48:38: 8000000 INFO @ Sat, 03 Apr 2021 06:48:40: 3000000 INFO @ Sat, 03 Apr 2021 06:48:44: 9000000 INFO @ Sat, 03 Apr 2021 06:48:46: 4000000 INFO @ Sat, 03 Apr 2021 06:48:50: 10000000 INFO @ Sat, 03 Apr 2021 06:48:51: 5000000 INFO @ Sat, 03 Apr 2021 06:48:55: 11000000 INFO @ Sat, 03 Apr 2021 06:48:57: 6000000 INFO @ Sat, 03 Apr 2021 06:48:58: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:49:01: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:49:01: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:49:01: #1 total tags in treatment: 11896526 INFO @ Sat, 03 Apr 2021 06:49:01: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:49:01: #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 06:49:01: #1 tags after filtering in treatment: 11896526 INFO @ Sat, 03 Apr 2021 06:49:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:49:01: #1 finished! INFO @ Sat, 03 Apr 2021 06:49:01: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:49:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:49:02: #2 number of paired peaks: 2062 INFO @ Sat, 03 Apr 2021 06:49:02: start model_add_line... INFO @ Sat, 03 Apr 2021 06:49:02: start X-correlation... INFO @ Sat, 03 Apr 2021 06:49:02: end of X-cor INFO @ Sat, 03 Apr 2021 06:49:02: #2 finished! INFO @ Sat, 03 Apr 2021 06:49:02: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:49:02: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:49:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.10_model.r WARNING @ Sat, 03 Apr 2021 06:49:02: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:49:02: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:49:02: #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 06:49:02: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:49:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:49:03: 7000000 INFO @ Sat, 03 Apr 2021 06:49:08: 8000000 INFO @ Sat, 03 Apr 2021 06:49:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:49:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:49:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.05_summits.bed INFO @ Sat, 03 Apr 2021 06:49:13: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (13120 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:49:14: 9000000 INFO @ Sat, 03 Apr 2021 06:49:19: 10000000 INFO @ Sat, 03 Apr 2021 06:49:25: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:49:30: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:49:30: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:49:30: #1 total tags in treatment: 11896526 INFO @ Sat, 03 Apr 2021 06:49:30: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:49:30: #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 06:49:30: #1 tags after filtering in treatment: 11896526 INFO @ Sat, 03 Apr 2021 06:49:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:49:30: #1 finished! INFO @ Sat, 03 Apr 2021 06:49:30: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:49:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:49:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:49:31: #2 number of paired peaks: 2062 INFO @ Sat, 03 Apr 2021 06:49:31: start model_add_line... INFO @ Sat, 03 Apr 2021 06:49:31: start X-correlation... INFO @ Sat, 03 Apr 2021 06:49:31: end of X-cor INFO @ Sat, 03 Apr 2021 06:49:31: #2 finished! INFO @ Sat, 03 Apr 2021 06:49:31: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:49:31: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:49:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.20_model.r WARNING @ Sat, 03 Apr 2021 06:49:31: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:49:31: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:49:31: #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 06:49:31: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:49:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:49:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:49:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:49:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.10_summits.bed INFO @ Sat, 03 Apr 2021 06:49:45: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7397 records, 4 fields): 9 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:50:02: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:50:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:50:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:50:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010766/SRX5010766.20_summits.bed INFO @ Sat, 03 Apr 2021 06:50:18: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2586 records, 4 fields): 5 millis CompletedMACS2peakCalling