Job ID = 14166978 SRX = SRX7723711 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 35759716 spots for SRR11084667/SRR11084667.sra Written 35759716 spots for SRR11084667/SRR11084667.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167329 ("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: 00:17:15 35759716 reads; of these: 35759716 (100.00%) were unpaired; of these: 2463910 (6.89%) aligned 0 times 26526525 (74.18%) aligned exactly 1 time 6769281 (18.93%) aligned >1 times 93.11% overall alignment rate Time searching: 00:17:15 Overall time: 00:17:15 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 16 files... [bam_rmdupse_core] 11607536 / 33295806 = 0.3486 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 08:43:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.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 08:43:25: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:43:25: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:43:31: 1000000 INFO @ Fri, 10 Dec 2021 08:43:37: 2000000 INFO @ Fri, 10 Dec 2021 08:43:43: 3000000 INFO @ Fri, 10 Dec 2021 08:43:51: 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 08:43:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.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 08:43:54: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:43:54: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:43:58: 5000000 INFO @ Fri, 10 Dec 2021 08:44:02: 1000000 INFO @ Fri, 10 Dec 2021 08:44:05: 6000000 INFO @ Fri, 10 Dec 2021 08:44:09: 2000000 INFO @ Fri, 10 Dec 2021 08:44:13: 7000000 INFO @ Fri, 10 Dec 2021 08:44:17: 3000000 INFO @ Fri, 10 Dec 2021 08:44:20: 8000000 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 08:44:24: 4000000 INFO @ Fri, 10 Dec 2021 08:44:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.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 08:44:24: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:44:24: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:44:28: 9000000 INFO @ Fri, 10 Dec 2021 08:44:32: 5000000 INFO @ Fri, 10 Dec 2021 08:44:32: 1000000 INFO @ Fri, 10 Dec 2021 08:44:35: 10000000 INFO @ Fri, 10 Dec 2021 08:44:39: 6000000 INFO @ Fri, 10 Dec 2021 08:44:39: 2000000 INFO @ Fri, 10 Dec 2021 08:44:43: 11000000 INFO @ Fri, 10 Dec 2021 08:44:47: 7000000 INFO @ Fri, 10 Dec 2021 08:44:47: 3000000 INFO @ Fri, 10 Dec 2021 08:44:50: 12000000 INFO @ Fri, 10 Dec 2021 08:44:54: 8000000 INFO @ Fri, 10 Dec 2021 08:44:54: 4000000 INFO @ Fri, 10 Dec 2021 08:44:58: 13000000 INFO @ Fri, 10 Dec 2021 08:45:02: 9000000 INFO @ Fri, 10 Dec 2021 08:45:02: 5000000 INFO @ Fri, 10 Dec 2021 08:45:05: 14000000 INFO @ Fri, 10 Dec 2021 08:45:09: 10000000 INFO @ Fri, 10 Dec 2021 08:45:09: 6000000 INFO @ Fri, 10 Dec 2021 08:45:13: 15000000 INFO @ Fri, 10 Dec 2021 08:45:16: 11000000 INFO @ Fri, 10 Dec 2021 08:45:17: 7000000 INFO @ Fri, 10 Dec 2021 08:45:20: 16000000 INFO @ Fri, 10 Dec 2021 08:45:24: 12000000 INFO @ Fri, 10 Dec 2021 08:45:24: 8000000 INFO @ Fri, 10 Dec 2021 08:45:28: 17000000 INFO @ Fri, 10 Dec 2021 08:45:31: 13000000 INFO @ Fri, 10 Dec 2021 08:45:31: 9000000 INFO @ Fri, 10 Dec 2021 08:45:35: 18000000 INFO @ Fri, 10 Dec 2021 08:45:39: 14000000 INFO @ Fri, 10 Dec 2021 08:45:39: 10000000 INFO @ Fri, 10 Dec 2021 08:45:43: 19000000 INFO @ Fri, 10 Dec 2021 08:45:46: 15000000 INFO @ Fri, 10 Dec 2021 08:45:46: 11000000 INFO @ Fri, 10 Dec 2021 08:45:51: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:45:53: 12000000 INFO @ Fri, 10 Dec 2021 08:45:54: 16000000 INFO @ Fri, 10 Dec 2021 08:45:59: 21000000 INFO @ Fri, 10 Dec 2021 08:46:01: 13000000 INFO @ Fri, 10 Dec 2021 08:46:01: 17000000 INFO @ Fri, 10 Dec 2021 08:46:05: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 08:46:05: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 08:46:05: #1 total tags in treatment: 21688270 INFO @ Fri, 10 Dec 2021 08:46:05: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:46:05: #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 08:46:05: #1 tags after filtering in treatment: 21688270 INFO @ Fri, 10 Dec 2021 08:46:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:46:05: #1 finished! INFO @ Fri, 10 Dec 2021 08:46:05: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:46:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:46:07: #2 number of paired peaks: 1382 INFO @ Fri, 10 Dec 2021 08:46:07: start model_add_line... INFO @ Fri, 10 Dec 2021 08:46:07: start X-correlation... INFO @ Fri, 10 Dec 2021 08:46:07: end of X-cor INFO @ Fri, 10 Dec 2021 08:46:07: #2 finished! INFO @ Fri, 10 Dec 2021 08:46:07: #2 predicted fragment length is 95 bps INFO @ Fri, 10 Dec 2021 08:46:07: #2 alternative fragment length(s) may be 95 bps INFO @ Fri, 10 Dec 2021 08:46:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.05_model.r WARNING @ Fri, 10 Dec 2021 08:46:07: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 08:46:07: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Fri, 10 Dec 2021 08:46:07: #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 08:46:07: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:46:07: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:46:09: 14000000 INFO @ Fri, 10 Dec 2021 08:46:09: 18000000 INFO @ Fri, 10 Dec 2021 08:46:16: 15000000 INFO @ Fri, 10 Dec 2021 08:46:17: 19000000 INFO @ Fri, 10 Dec 2021 08:46:24: 16000000 INFO @ Fri, 10 Dec 2021 08:46:24: 20000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:46:31: 17000000 INFO @ Fri, 10 Dec 2021 08:46:32: 21000000 INFO @ Fri, 10 Dec 2021 08:46:37: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 08:46:37: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 08:46:37: #1 total tags in treatment: 21688270 INFO @ Fri, 10 Dec 2021 08:46:37: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:46:37: #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 08:46:37: #1 tags after filtering in treatment: 21688270 INFO @ Fri, 10 Dec 2021 08:46:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:46:37: #1 finished! INFO @ Fri, 10 Dec 2021 08:46:37: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:46:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:46:39: 18000000 INFO @ Fri, 10 Dec 2021 08:46:39: #2 number of paired peaks: 1382 INFO @ Fri, 10 Dec 2021 08:46:39: start model_add_line... INFO @ Fri, 10 Dec 2021 08:46:39: start X-correlation... INFO @ Fri, 10 Dec 2021 08:46:39: end of X-cor INFO @ Fri, 10 Dec 2021 08:46:39: #2 finished! INFO @ Fri, 10 Dec 2021 08:46:39: #2 predicted fragment length is 95 bps INFO @ Fri, 10 Dec 2021 08:46:39: #2 alternative fragment length(s) may be 95 bps INFO @ Fri, 10 Dec 2021 08:46:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.10_model.r WARNING @ Fri, 10 Dec 2021 08:46:39: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 08:46:39: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Fri, 10 Dec 2021 08:46:39: #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 08:46:39: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:46:39: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:46:46: 19000000 INFO @ Fri, 10 Dec 2021 08:46:48: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:46:53: 20000000 INFO @ Fri, 10 Dec 2021 08:47:00: 21000000 INFO @ Fri, 10 Dec 2021 08:47:05: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 08:47:05: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 08:47:05: #1 total tags in treatment: 21688270 INFO @ Fri, 10 Dec 2021 08:47:05: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:47:05: #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 08:47:05: #1 tags after filtering in treatment: 21688270 INFO @ Fri, 10 Dec 2021 08:47:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:47:05: #1 finished! INFO @ Fri, 10 Dec 2021 08:47:05: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:47:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:47:06: #2 number of paired peaks: 1382 INFO @ Fri, 10 Dec 2021 08:47:06: start model_add_line... INFO @ Fri, 10 Dec 2021 08:47:07: start X-correlation... INFO @ Fri, 10 Dec 2021 08:47:07: end of X-cor INFO @ Fri, 10 Dec 2021 08:47:07: #2 finished! INFO @ Fri, 10 Dec 2021 08:47:07: #2 predicted fragment length is 95 bps INFO @ Fri, 10 Dec 2021 08:47:07: #2 alternative fragment length(s) may be 95 bps INFO @ Fri, 10 Dec 2021 08:47:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.20_model.r WARNING @ Fri, 10 Dec 2021 08:47:07: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 08:47:07: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Fri, 10 Dec 2021 08:47:07: #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 08:47:07: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:47:07: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:47:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:47:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:47:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.05_summits.bed INFO @ Fri, 10 Dec 2021 08:47:09: Done! pass1 - making usageList (15 chroms): 7 millis pass2 - checking and writing primary data (47836 records, 4 fields): 41 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:47:18: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:47:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:47:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:47:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.10_summits.bed INFO @ Fri, 10 Dec 2021 08:47:38: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (32592 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:47:44: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:48:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:48:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:48:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7723711/SRX7723711.20_summits.bed INFO @ Fri, 10 Dec 2021 08:48:03: Done! pass1 - making usageList (13 chroms): 3 millis pass2 - checking and writing primary data (16434 records, 4 fields): 15 millis CompletedMACS2peakCalling