Job ID = 14170864 SRX = SRX8689032 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: 00:02:22 5237246 reads; of these: 5237246 (100.00%) were unpaired; of these: 353501 (6.75%) aligned 0 times 3154593 (60.23%) aligned exactly 1 time 1729152 (33.02%) aligned >1 times 93.25% overall alignment rate Time searching: 00:02:22 Overall time: 00:02:22 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] 499388 / 4883745 = 0.1023 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 08:57:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.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 08:57:31: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:57:31: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:57:40: 1000000 INFO @ Sat, 11 Dec 2021 08:57:49: 2000000 INFO @ Sat, 11 Dec 2021 08:57:58: 3000000 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 08:58:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.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 08:58:01: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:58:01: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:58:07: 4000000 INFO @ Sat, 11 Dec 2021 08:58:11: 1000000 INFO @ Sat, 11 Dec 2021 08:58:11: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:58:11: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:58:11: #1 total tags in treatment: 4384357 INFO @ Sat, 11 Dec 2021 08:58:11: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:58:11: #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 08:58:11: #1 tags after filtering in treatment: 4384175 INFO @ Sat, 11 Dec 2021 08:58:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:58:11: #1 finished! INFO @ Sat, 11 Dec 2021 08:58:11: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:58:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:58:12: #2 number of paired peaks: 1204 INFO @ Sat, 11 Dec 2021 08:58:12: start model_add_line... INFO @ Sat, 11 Dec 2021 08:58:12: start X-correlation... INFO @ Sat, 11 Dec 2021 08:58:12: end of X-cor INFO @ Sat, 11 Dec 2021 08:58:12: #2 finished! INFO @ Sat, 11 Dec 2021 08:58:12: #2 predicted fragment length is 61 bps INFO @ Sat, 11 Dec 2021 08:58:12: #2 alternative fragment length(s) may be 61 bps INFO @ Sat, 11 Dec 2021 08:58:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.05_model.r WARNING @ Sat, 11 Dec 2021 08:58:12: #2 Since the d (61) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:58:12: #2 You may need to consider one of the other alternative d(s): 61 WARNING @ Sat, 11 Dec 2021 08:58:12: #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 08:58:12: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:58:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:58:20: 2000000 INFO @ Sat, 11 Dec 2021 08:58:26: #3 Call peaks for each chromosome... 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 08:58:30: 3000000 INFO @ Sat, 11 Dec 2021 08:58:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.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 08:58:31: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:58:31: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:58:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:58:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:58:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.05_summits.bed INFO @ Sat, 11 Dec 2021 08:58:33: Done! pass1 - making usageList (576 chroms): 2 millis pass2 - checking and writing primary data (1936 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:58:40: 4000000 INFO @ Sat, 11 Dec 2021 08:58:42: 1000000 INFO @ Sat, 11 Dec 2021 08:58:44: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:58:44: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:58:44: #1 total tags in treatment: 4384357 INFO @ Sat, 11 Dec 2021 08:58:44: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:58:44: #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 08:58:45: #1 tags after filtering in treatment: 4384175 INFO @ Sat, 11 Dec 2021 08:58:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:58:45: #1 finished! INFO @ Sat, 11 Dec 2021 08:58:45: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:58:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:58:45: #2 number of paired peaks: 1204 INFO @ Sat, 11 Dec 2021 08:58:45: start model_add_line... INFO @ Sat, 11 Dec 2021 08:58:45: start X-correlation... INFO @ Sat, 11 Dec 2021 08:58:45: end of X-cor INFO @ Sat, 11 Dec 2021 08:58:45: #2 finished! INFO @ Sat, 11 Dec 2021 08:58:45: #2 predicted fragment length is 61 bps INFO @ Sat, 11 Dec 2021 08:58:45: #2 alternative fragment length(s) may be 61 bps INFO @ Sat, 11 Dec 2021 08:58:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.10_model.r WARNING @ Sat, 11 Dec 2021 08:58:45: #2 Since the d (61) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:58:45: #2 You may need to consider one of the other alternative d(s): 61 WARNING @ Sat, 11 Dec 2021 08:58:45: #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 08:58:45: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:58:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:58:53: 2000000 INFO @ Sat, 11 Dec 2021 08:59:00: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:59:04: 3000000 INFO @ Sat, 11 Dec 2021 08:59:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:59:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:59:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.10_summits.bed INFO @ Sat, 11 Dec 2021 08:59:07: Done! pass1 - making usageList (361 chroms): 3 millis pass2 - checking and writing primary data (927 records, 4 fields): 18 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:59:16: 4000000 INFO @ Sat, 11 Dec 2021 08:59:20: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:59:20: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:59:20: #1 total tags in treatment: 4384357 INFO @ Sat, 11 Dec 2021 08:59:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:59:20: #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 08:59:20: #1 tags after filtering in treatment: 4384175 INFO @ Sat, 11 Dec 2021 08:59:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:59:20: #1 finished! INFO @ Sat, 11 Dec 2021 08:59:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:59:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:59:21: #2 number of paired peaks: 1204 INFO @ Sat, 11 Dec 2021 08:59:21: start model_add_line... INFO @ Sat, 11 Dec 2021 08:59:21: start X-correlation... INFO @ Sat, 11 Dec 2021 08:59:21: end of X-cor INFO @ Sat, 11 Dec 2021 08:59:21: #2 finished! INFO @ Sat, 11 Dec 2021 08:59:21: #2 predicted fragment length is 61 bps INFO @ Sat, 11 Dec 2021 08:59:21: #2 alternative fragment length(s) may be 61 bps INFO @ Sat, 11 Dec 2021 08:59:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.20_model.r WARNING @ Sat, 11 Dec 2021 08:59:21: #2 Since the d (61) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:59:21: #2 You may need to consider one of the other alternative d(s): 61 WARNING @ Sat, 11 Dec 2021 08:59:21: #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 08:59:21: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:59:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:59:35: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:59:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:59:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:59:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689032/SRX8689032.20_summits.bed INFO @ Sat, 11 Dec 2021 08:59:41: Done! pass1 - making usageList (178 chroms): 2 millis pass2 - checking and writing primary data (347 records, 4 fields): 19 millis CompletedMACS2peakCalling