Job ID = 12265357 SRX = SRX3467361 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:35 12561622 reads; of these: 12561622 (100.00%) were unpaired; of these: 7249289 (57.71%) aligned 0 times 4968453 (39.55%) aligned exactly 1 time 343880 (2.74%) aligned >1 times 42.29% overall alignment rate Time searching: 00:04:35 Overall time: 00:04:35 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 1625433 / 5312333 = 0.3060 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 06:46:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.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 06:46:21: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:46:21: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:46:27: 1000000 INFO @ Sat, 03 Apr 2021 06:46:33: 2000000 INFO @ Sat, 03 Apr 2021 06:46:39: 3000000 INFO @ Sat, 03 Apr 2021 06:46:43: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:46:43: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:46:43: #1 total tags in treatment: 3686900 INFO @ Sat, 03 Apr 2021 06:46:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:46:43: #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 06:46:43: #1 tags after filtering in treatment: 3686374 INFO @ Sat, 03 Apr 2021 06:46:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:46:43: #1 finished! INFO @ Sat, 03 Apr 2021 06:46:43: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:46:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:46:44: #2 number of paired peaks: 6090 INFO @ Sat, 03 Apr 2021 06:46:44: start model_add_line... INFO @ Sat, 03 Apr 2021 06:46:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:46:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:46:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:46:44: #2 predicted fragment length is 118 bps INFO @ Sat, 03 Apr 2021 06:46:44: #2 alternative fragment length(s) may be 118 bps INFO @ Sat, 03 Apr 2021 06:46:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.05_model.r WARNING @ Sat, 03 Apr 2021 06:46:44: #2 Since the d (118) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:46:44: #2 You may need to consider one of the other alternative d(s): 118 WARNING @ Sat, 03 Apr 2021 06:46:44: #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 06:46:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:46:44: #3 Pre-compute pvalue-qvalue table... 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 06:46:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.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 06:46:51: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:46:51: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:46:54: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:46:57: 1000000 INFO @ Sat, 03 Apr 2021 06:46:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:46:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:46:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.05_summits.bed INFO @ Sat, 03 Apr 2021 06:46:59: Done! pass1 - making usageList (81 chroms): 3 millis pass2 - checking and writing primary data (14460 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:47:03: 2000000 INFO @ Sat, 03 Apr 2021 06:47:09: 3000000 INFO @ Sat, 03 Apr 2021 06:47:13: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:47:13: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:47:13: #1 total tags in treatment: 3686900 INFO @ Sat, 03 Apr 2021 06:47:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:47:13: #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 06:47:13: #1 tags after filtering in treatment: 3686374 INFO @ Sat, 03 Apr 2021 06:47:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:47:13: #1 finished! INFO @ Sat, 03 Apr 2021 06:47:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:47:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:47:14: #2 number of paired peaks: 6090 INFO @ Sat, 03 Apr 2021 06:47:14: start model_add_line... INFO @ Sat, 03 Apr 2021 06:47:14: start X-correlation... INFO @ Sat, 03 Apr 2021 06:47:14: end of X-cor INFO @ Sat, 03 Apr 2021 06:47:14: #2 finished! INFO @ Sat, 03 Apr 2021 06:47:14: #2 predicted fragment length is 118 bps INFO @ Sat, 03 Apr 2021 06:47:14: #2 alternative fragment length(s) may be 118 bps INFO @ Sat, 03 Apr 2021 06:47:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.10_model.r WARNING @ Sat, 03 Apr 2021 06:47:14: #2 Since the d (118) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:47:14: #2 You may need to consider one of the other alternative d(s): 118 WARNING @ Sat, 03 Apr 2021 06:47:14: #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 06:47:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:47:14: #3 Pre-compute pvalue-qvalue table... 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 06:47:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.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 06:47:21: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:47:21: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:47:23: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:47:27: 1000000 INFO @ Sat, 03 Apr 2021 06:47:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:47:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:47:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.10_summits.bed INFO @ Sat, 03 Apr 2021 06:47:28: Done! pass1 - making usageList (58 chroms): 2 millis pass2 - checking and writing primary data (8730 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:47:33: 2000000 INFO @ Sat, 03 Apr 2021 06:47:39: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:47:43: #1 tag size is determined as 97 bps INFO @ Sat, 03 Apr 2021 06:47:43: #1 tag size = 97 INFO @ Sat, 03 Apr 2021 06:47:43: #1 total tags in treatment: 3686900 INFO @ Sat, 03 Apr 2021 06:47:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:47:43: #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 06:47:44: #1 tags after filtering in treatment: 3686374 INFO @ Sat, 03 Apr 2021 06:47:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:47:44: #1 finished! INFO @ Sat, 03 Apr 2021 06:47:44: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:47:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:47:44: #2 number of paired peaks: 6090 INFO @ Sat, 03 Apr 2021 06:47:44: start model_add_line... INFO @ Sat, 03 Apr 2021 06:47:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:47:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:47:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:47:44: #2 predicted fragment length is 118 bps INFO @ Sat, 03 Apr 2021 06:47:44: #2 alternative fragment length(s) may be 118 bps INFO @ Sat, 03 Apr 2021 06:47:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.20_model.r WARNING @ Sat, 03 Apr 2021 06:47:44: #2 Since the d (118) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:47:44: #2 You may need to consider one of the other alternative d(s): 118 WARNING @ Sat, 03 Apr 2021 06:47:44: #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 06:47:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:47:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:47:53: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:47:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:47:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:47:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3467361/SRX3467361.20_summits.bed INFO @ Sat, 03 Apr 2021 06:47:58: Done! pass1 - making usageList (27 chroms): 1 millis pass2 - checking and writing primary data (3737 records, 4 fields): 6 millis CompletedMACS2peakCalling