Job ID = 12264839 SRX = SRX2661681 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22963239 spots for SRR5366412/SRR5366412.sra Written 22963239 spots for SRR5366412/SRR5366412.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265083 ("srTdm6") has been submitted Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:53 22963239 reads; of these: 22963239 (100.00%) were unpaired; of these: 1764330 (7.68%) aligned 0 times 17612263 (76.70%) aligned exactly 1 time 3586646 (15.62%) aligned >1 times 92.32% overall alignment rate Time searching: 00:05:54 Overall time: 00:05:54 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] 9427889 / 21198909 = 0.4447 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 06:05:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.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 06:05:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:05:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:05:39: 1000000 INFO @ Sat, 03 Apr 2021 06:05:46: 2000000 INFO @ Sat, 03 Apr 2021 06:05:53: 3000000 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 06:06:01: 4000000 INFO @ Sat, 03 Apr 2021 06:06:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.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 06:06:01: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:06:01: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:06:08: 5000000 INFO @ Sat, 03 Apr 2021 06:06:08: 1000000 INFO @ Sat, 03 Apr 2021 06:06:15: 6000000 INFO @ Sat, 03 Apr 2021 06:06:16: 2000000 INFO @ Sat, 03 Apr 2021 06:06:22: 7000000 INFO @ Sat, 03 Apr 2021 06:06:23: 3000000 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 06:06:30: 8000000 INFO @ Sat, 03 Apr 2021 06:06:30: 4000000 INFO @ Sat, 03 Apr 2021 06:06:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.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 06:06:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:06:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:06:37: 9000000 INFO @ Sat, 03 Apr 2021 06:06:38: 5000000 INFO @ Sat, 03 Apr 2021 06:06:38: 1000000 INFO @ Sat, 03 Apr 2021 06:06:44: 10000000 INFO @ Sat, 03 Apr 2021 06:06:45: 2000000 INFO @ Sat, 03 Apr 2021 06:06:45: 6000000 INFO @ Sat, 03 Apr 2021 06:06:51: 3000000 INFO @ Sat, 03 Apr 2021 06:06:52: 11000000 INFO @ Sat, 03 Apr 2021 06:06:52: 7000000 INFO @ Sat, 03 Apr 2021 06:06:58: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:06:58: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:06:58: #1 total tags in treatment: 11771020 INFO @ Sat, 03 Apr 2021 06:06:58: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:06:58: #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 06:06:58: #1 tags after filtering in treatment: 11771020 INFO @ Sat, 03 Apr 2021 06:06:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:06:58: #1 finished! INFO @ Sat, 03 Apr 2021 06:06:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:06:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:06:58: 4000000 INFO @ Sat, 03 Apr 2021 06:06:59: #2 number of paired peaks: 2228 INFO @ Sat, 03 Apr 2021 06:06:59: start model_add_line... INFO @ Sat, 03 Apr 2021 06:06:59: start X-correlation... INFO @ Sat, 03 Apr 2021 06:06:59: end of X-cor INFO @ Sat, 03 Apr 2021 06:06:59: #2 finished! INFO @ Sat, 03 Apr 2021 06:06:59: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 06:06:59: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 06:06:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.05_model.r WARNING @ Sat, 03 Apr 2021 06:06:59: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:06:59: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 06:06:59: #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 06:06:59: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:06:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:06:59: 8000000 INFO @ Sat, 03 Apr 2021 06:07:05: 5000000 INFO @ Sat, 03 Apr 2021 06:07:06: 9000000 INFO @ Sat, 03 Apr 2021 06:07:11: 6000000 INFO @ Sat, 03 Apr 2021 06:07:14: 10000000 INFO @ Sat, 03 Apr 2021 06:07:18: 7000000 INFO @ Sat, 03 Apr 2021 06:07:21: 11000000 INFO @ Sat, 03 Apr 2021 06:07:25: 8000000 INFO @ Sat, 03 Apr 2021 06:07:27: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:07:27: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:07:27: #1 total tags in treatment: 11771020 INFO @ Sat, 03 Apr 2021 06:07:27: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:07:27: #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 06:07:27: #1 tags after filtering in treatment: 11771020 INFO @ Sat, 03 Apr 2021 06:07:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:07:27: #1 finished! INFO @ Sat, 03 Apr 2021 06:07:27: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:07:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:07:28: #2 number of paired peaks: 2228 INFO @ Sat, 03 Apr 2021 06:07:28: start model_add_line... INFO @ Sat, 03 Apr 2021 06:07:28: start X-correlation... INFO @ Sat, 03 Apr 2021 06:07:28: end of X-cor INFO @ Sat, 03 Apr 2021 06:07:28: #2 finished! INFO @ Sat, 03 Apr 2021 06:07:28: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 06:07:28: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 06:07:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.10_model.r WARNING @ Sat, 03 Apr 2021 06:07:28: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:07:28: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 06:07:28: #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 06:07:28: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:07:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:07:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:07:31: 9000000 INFO @ Sat, 03 Apr 2021 06:07:38: 10000000 INFO @ Sat, 03 Apr 2021 06:07:45: 11000000 INFO @ Sat, 03 Apr 2021 06:07:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:07:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:07:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.05_summits.bed INFO @ Sat, 03 Apr 2021 06:07:50: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:07:50: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:07:50: #1 total tags in treatment: 11771020 INFO @ Sat, 03 Apr 2021 06:07:50: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:07:50: #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 06:07:50: Done! INFO @ Sat, 03 Apr 2021 06:07:50: #1 tags after filtering in treatment: 11771020 INFO @ Sat, 03 Apr 2021 06:07:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:07:50: #1 finished! INFO @ Sat, 03 Apr 2021 06:07:50: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:07:50: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (15 chroms): 6 millis pass2 - checking and writing primary data (19464 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:07:52: #2 number of paired peaks: 2228 INFO @ Sat, 03 Apr 2021 06:07:52: start model_add_line... INFO @ Sat, 03 Apr 2021 06:07:52: start X-correlation... INFO @ Sat, 03 Apr 2021 06:07:52: end of X-cor INFO @ Sat, 03 Apr 2021 06:07:52: #2 finished! INFO @ Sat, 03 Apr 2021 06:07:52: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 06:07:52: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 06:07:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.20_model.r WARNING @ Sat, 03 Apr 2021 06:07:52: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:07:52: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 06:07:52: #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 06:07:52: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:07:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:08:01: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:08:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:08:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:08:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.10_summits.bed INFO @ Sat, 03 Apr 2021 06:08:20: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (11859 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:08:24: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:08:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:08:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:08:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661681/SRX2661681.20_summits.bed INFO @ Sat, 03 Apr 2021 06:08:42: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (4016 records, 4 fields): 10 millis CompletedMACS2peakCalling BigWig に変換しました。