Job ID = 14170499 SRX = SRX8689060 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 7083239 spots for SRR12174374/SRR12174374.sra Written 7083239 spots for SRR12174374/SRR12174374.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170894 ("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: 00:01:00 7083239 reads; of these: 7083239 (100.00%) were unpaired; of these: 5760049 (81.32%) aligned 0 times 1013795 (14.31%) aligned exactly 1 time 309395 (4.37%) aligned >1 times 18.68% overall alignment rate Time searching: 00:01:00 Overall time: 00:01:00 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_rmdupse_core] 84686 / 1323190 = 0.0640 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 @ Sat, 11 Dec 2021 06:59:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.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, 11 Dec 2021 06:59:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 06:59:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 06:59:49: 1000000 INFO @ Sat, 11 Dec 2021 06:59:51: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 06:59:51: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 06:59:51: #1 total tags in treatment: 1238504 INFO @ Sat, 11 Dec 2021 06:59:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 06:59:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 06:59:51: #1 tags after filtering in treatment: 1238504 INFO @ Sat, 11 Dec 2021 06:59:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 06:59:51: #1 finished! INFO @ Sat, 11 Dec 2021 06:59:51: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 06:59:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 06:59:51: #2 number of paired peaks: 2276 INFO @ Sat, 11 Dec 2021 06:59:51: start model_add_line... INFO @ Sat, 11 Dec 2021 06:59:51: start X-correlation... INFO @ Sat, 11 Dec 2021 06:59:51: end of X-cor INFO @ Sat, 11 Dec 2021 06:59:51: #2 finished! INFO @ Sat, 11 Dec 2021 06:59:51: #2 predicted fragment length is 97 bps INFO @ Sat, 11 Dec 2021 06:59:51: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 11 Dec 2021 06:59:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.05_model.r WARNING @ Sat, 11 Dec 2021 06:59:51: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 06:59:51: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 11 Dec 2021 06:59:51: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 06:59:51: #3 Call peaks... INFO @ Sat, 11 Dec 2021 06:59:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 06:59:54: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 06:59:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.05_peaks.xls INFO @ Sat, 11 Dec 2021 06:59:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 06:59:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.05_summits.bed INFO @ Sat, 11 Dec 2021 06:59:55: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (651 records, 4 fields): 2 millis CompletedMACS2peakCalling 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 @ Sat, 11 Dec 2021 07:00:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.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, 11 Dec 2021 07:00:14: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:00:14: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:00:19: 1000000 INFO @ Sat, 11 Dec 2021 07:00:21: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:00:21: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:00:21: #1 total tags in treatment: 1238504 INFO @ Sat, 11 Dec 2021 07:00:21: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:00:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:00:21: #1 tags after filtering in treatment: 1238504 INFO @ Sat, 11 Dec 2021 07:00:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:00:21: #1 finished! INFO @ Sat, 11 Dec 2021 07:00:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:00:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:00:21: #2 number of paired peaks: 2276 INFO @ Sat, 11 Dec 2021 07:00:21: start model_add_line... INFO @ Sat, 11 Dec 2021 07:00:21: start X-correlation... INFO @ Sat, 11 Dec 2021 07:00:21: end of X-cor INFO @ Sat, 11 Dec 2021 07:00:21: #2 finished! INFO @ Sat, 11 Dec 2021 07:00:21: #2 predicted fragment length is 97 bps INFO @ Sat, 11 Dec 2021 07:00:21: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 11 Dec 2021 07:00:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.10_model.r WARNING @ Sat, 11 Dec 2021 07:00:21: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 07:00:21: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 11 Dec 2021 07:00:21: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 07:00:21: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:00:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:00:24: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:00:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:00:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:00:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.10_summits.bed INFO @ Sat, 11 Dec 2021 07:00:25: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (394 records, 4 fields): 1 millis CompletedMACS2peakCalling 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 @ Sat, 11 Dec 2021 07:00:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.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, 11 Dec 2021 07:00:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:00:44: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:00:49: 1000000 INFO @ Sat, 11 Dec 2021 07:00:51: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:00:51: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:00:51: #1 total tags in treatment: 1238504 INFO @ Sat, 11 Dec 2021 07:00:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:00:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:00:51: #1 tags after filtering in treatment: 1238504 INFO @ Sat, 11 Dec 2021 07:00:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:00:51: #1 finished! INFO @ Sat, 11 Dec 2021 07:00:51: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:00:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:00:51: #2 number of paired peaks: 2276 INFO @ Sat, 11 Dec 2021 07:00:51: start model_add_line... INFO @ Sat, 11 Dec 2021 07:00:51: start X-correlation... INFO @ Sat, 11 Dec 2021 07:00:51: end of X-cor INFO @ Sat, 11 Dec 2021 07:00:51: #2 finished! INFO @ Sat, 11 Dec 2021 07:00:51: #2 predicted fragment length is 97 bps INFO @ Sat, 11 Dec 2021 07:00:51: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 11 Dec 2021 07:00:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.20_model.r WARNING @ Sat, 11 Dec 2021 07:00:51: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 07:00:51: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 11 Dec 2021 07:00:51: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 07:00:51: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:00:51: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:00:54: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:00:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.20_peaks.xls INFO @ Sat, 11 Dec 2021 07:00:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:00:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8689060/SRX8689060.20_summits.bed INFO @ Sat, 11 Dec 2021 07:00:55: Done! pass1 - making usageList (5 chroms): 0 millis pass2 - checking and writing primary data (139 records, 4 fields): 3 millis CompletedMACS2peakCalling