Job ID = 12265291 SRX = SRX5010750 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 14507566 spots for SRR8191175/SRR8191175.sra Written 14507566 spots for SRR8191175/SRR8191175.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265411 ("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: 00:03:56 14507566 reads; of these: 14507566 (100.00%) were unpaired; of these: 511415 (3.53%) aligned 0 times 8016805 (55.26%) aligned exactly 1 time 5979346 (41.22%) aligned >1 times 96.47% overall alignment rate Time searching: 00:03:56 Overall time: 00:03:56 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 8 files... [bam_rmdupse_core] 7343491 / 13996151 = 0.5247 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 06:32:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.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 06:32:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:32:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:32:38: 1000000 INFO @ Sat, 03 Apr 2021 06:32:44: 2000000 INFO @ Sat, 03 Apr 2021 06:32:50: 3000000 INFO @ Sat, 03 Apr 2021 06:32:56: 4000000 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 06:33:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.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 06:33:02: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:33:02: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:33:02: 5000000 INFO @ Sat, 03 Apr 2021 06:33:09: 1000000 INFO @ Sat, 03 Apr 2021 06:33:09: 6000000 INFO @ Sat, 03 Apr 2021 06:33:14: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:33:14: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:33:14: #1 total tags in treatment: 6652660 INFO @ Sat, 03 Apr 2021 06:33:14: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:33:14: #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 06:33:14: #1 tags after filtering in treatment: 6652660 INFO @ Sat, 03 Apr 2021 06:33:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:33:14: #1 finished! INFO @ Sat, 03 Apr 2021 06:33:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:33:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:33:14: #2 number of paired peaks: 2612 INFO @ Sat, 03 Apr 2021 06:33:14: start model_add_line... INFO @ Sat, 03 Apr 2021 06:33:14: start X-correlation... INFO @ Sat, 03 Apr 2021 06:33:14: end of X-cor INFO @ Sat, 03 Apr 2021 06:33:14: #2 finished! INFO @ Sat, 03 Apr 2021 06:33:14: #2 predicted fragment length is 82 bps INFO @ Sat, 03 Apr 2021 06:33:14: #2 alternative fragment length(s) may be 82 bps INFO @ Sat, 03 Apr 2021 06:33:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.05_model.r WARNING @ Sat, 03 Apr 2021 06:33:14: #2 Since the d (82) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:33:14: #2 You may need to consider one of the other alternative d(s): 82 WARNING @ Sat, 03 Apr 2021 06:33:14: #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 06:33:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:33:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:33:16: 2000000 INFO @ Sat, 03 Apr 2021 06:33:22: 3000000 INFO @ Sat, 03 Apr 2021 06:33:28: 4000000 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 06:33:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:33:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.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 06:33:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:33:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:33:35: 5000000 INFO @ Sat, 03 Apr 2021 06:33:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:33:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:33:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.05_summits.bed INFO @ Sat, 03 Apr 2021 06:33:39: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9794 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:33:40: 1000000 INFO @ Sat, 03 Apr 2021 06:33:43: 6000000 INFO @ Sat, 03 Apr 2021 06:33:48: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:33:48: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:33:48: #1 total tags in treatment: 6652660 INFO @ Sat, 03 Apr 2021 06:33:48: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:33:48: #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 06:33:48: #1 tags after filtering in treatment: 6652660 INFO @ Sat, 03 Apr 2021 06:33:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:33:48: #1 finished! INFO @ Sat, 03 Apr 2021 06:33:48: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:33:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:33:48: 2000000 INFO @ Sat, 03 Apr 2021 06:33:49: #2 number of paired peaks: 2612 INFO @ Sat, 03 Apr 2021 06:33:49: start model_add_line... INFO @ Sat, 03 Apr 2021 06:33:49: start X-correlation... INFO @ Sat, 03 Apr 2021 06:33:49: end of X-cor INFO @ Sat, 03 Apr 2021 06:33:49: #2 finished! INFO @ Sat, 03 Apr 2021 06:33:49: #2 predicted fragment length is 82 bps INFO @ Sat, 03 Apr 2021 06:33:49: #2 alternative fragment length(s) may be 82 bps INFO @ Sat, 03 Apr 2021 06:33:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.10_model.r WARNING @ Sat, 03 Apr 2021 06:33:49: #2 Since the d (82) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:33:49: #2 You may need to consider one of the other alternative d(s): 82 WARNING @ Sat, 03 Apr 2021 06:33:49: #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 06:33:49: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:33:49: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:33:56: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:34:03: 4000000 INFO @ Sat, 03 Apr 2021 06:34:05: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:34:10: 5000000 INFO @ Sat, 03 Apr 2021 06:34:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:34:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:34:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.10_summits.bed INFO @ Sat, 03 Apr 2021 06:34:14: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5535 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:34:18: 6000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:34:22: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:34:22: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:34:22: #1 total tags in treatment: 6652660 INFO @ Sat, 03 Apr 2021 06:34:22: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:34:22: #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 06:34:22: #1 tags after filtering in treatment: 6652660 INFO @ Sat, 03 Apr 2021 06:34:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:34:22: #1 finished! INFO @ Sat, 03 Apr 2021 06:34:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:34:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:34:23: #2 number of paired peaks: 2612 INFO @ Sat, 03 Apr 2021 06:34:23: start model_add_line... INFO @ Sat, 03 Apr 2021 06:34:23: start X-correlation... INFO @ Sat, 03 Apr 2021 06:34:23: end of X-cor INFO @ Sat, 03 Apr 2021 06:34:23: #2 finished! INFO @ Sat, 03 Apr 2021 06:34:23: #2 predicted fragment length is 82 bps INFO @ Sat, 03 Apr 2021 06:34:23: #2 alternative fragment length(s) may be 82 bps INFO @ Sat, 03 Apr 2021 06:34:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.20_model.r WARNING @ Sat, 03 Apr 2021 06:34:23: #2 Since the d (82) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:34:23: #2 You may need to consider one of the other alternative d(s): 82 WARNING @ Sat, 03 Apr 2021 06:34:23: #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 06:34:23: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:34:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:34:38: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:34:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:34:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:34:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010750/SRX5010750.20_summits.bed INFO @ Sat, 03 Apr 2021 06:34:46: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2091 records, 4 fields): 4 millis CompletedMACS2peakCalling