Job ID = 10165862 SRX = SRX8832067 Genome = ce11 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:19 15544248 reads; of these: 15544248 (100.00%) were unpaired; of these: 812627 (5.23%) aligned 0 times 12845466 (82.64%) aligned exactly 1 time 1886155 (12.13%) aligned >1 times 94.77% overall alignment rate Time searching: 00:03:20 Overall time: 00:03:20 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 2413223 / 14731621 = 0.1638 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:08:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:08:53: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:08:53: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:09:00: 1000000 INFO @ Thu, 08 Oct 2020 20:09:07: 2000000 INFO @ Thu, 08 Oct 2020 20:09:14: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:09:22: 4000000 INFO @ Thu, 08 Oct 2020 20:09:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:09:22: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:09:22: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:09:29: 5000000 INFO @ Thu, 08 Oct 2020 20:09:29: 1000000 INFO @ Thu, 08 Oct 2020 20:09:36: 6000000 INFO @ Thu, 08 Oct 2020 20:09:36: 2000000 INFO @ Thu, 08 Oct 2020 20:09:43: 7000000 INFO @ Thu, 08 Oct 2020 20:09:44: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:09:50: 8000000 INFO @ Thu, 08 Oct 2020 20:09:51: 4000000 INFO @ Thu, 08 Oct 2020 20:09:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:09:52: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:09:52: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:09:57: 9000000 INFO @ Thu, 08 Oct 2020 20:09:58: 5000000 INFO @ Thu, 08 Oct 2020 20:09:59: 1000000 INFO @ Thu, 08 Oct 2020 20:10:04: 10000000 INFO @ Thu, 08 Oct 2020 20:10:05: 6000000 INFO @ Thu, 08 Oct 2020 20:10:06: 2000000 INFO @ Thu, 08 Oct 2020 20:10:11: 11000000 INFO @ Thu, 08 Oct 2020 20:10:12: 7000000 INFO @ Thu, 08 Oct 2020 20:10:13: 3000000 INFO @ Thu, 08 Oct 2020 20:10:18: 12000000 INFO @ Thu, 08 Oct 2020 20:10:19: 8000000 INFO @ Thu, 08 Oct 2020 20:10:20: 4000000 INFO @ Thu, 08 Oct 2020 20:10:20: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:10:20: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:10:20: #1 total tags in treatment: 12318398 INFO @ Thu, 08 Oct 2020 20:10:20: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:10:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:10:21: #1 tags after filtering in treatment: 12318398 INFO @ Thu, 08 Oct 2020 20:10:21: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:10:21: #1 finished! INFO @ Thu, 08 Oct 2020 20:10:21: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:10:21: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:10:22: #2 number of paired peaks: 3207 INFO @ Thu, 08 Oct 2020 20:10:22: start model_add_line... INFO @ Thu, 08 Oct 2020 20:10:22: start X-correlation... INFO @ Thu, 08 Oct 2020 20:10:22: end of X-cor INFO @ Thu, 08 Oct 2020 20:10:22: #2 finished! INFO @ Thu, 08 Oct 2020 20:10:22: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 20:10:22: #2 alternative fragment length(s) may be 4,148 bps INFO @ Thu, 08 Oct 2020 20:10:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.05_model.r INFO @ Thu, 08 Oct 2020 20:10:22: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:10:22: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:10:26: 9000000 INFO @ Thu, 08 Oct 2020 20:10:27: 5000000 INFO @ Thu, 08 Oct 2020 20:10:33: 10000000 INFO @ Thu, 08 Oct 2020 20:10:34: 6000000 INFO @ Thu, 08 Oct 2020 20:10:41: 11000000 INFO @ Thu, 08 Oct 2020 20:10:41: 7000000 INFO @ Thu, 08 Oct 2020 20:10:48: 12000000 INFO @ Thu, 08 Oct 2020 20:10:49: 8000000 INFO @ Thu, 08 Oct 2020 20:10:50: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:10:50: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:10:50: #1 total tags in treatment: 12318398 INFO @ Thu, 08 Oct 2020 20:10:50: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:10:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:10:50: #1 tags after filtering in treatment: 12318398 INFO @ Thu, 08 Oct 2020 20:10:50: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:10:50: #1 finished! INFO @ Thu, 08 Oct 2020 20:10:50: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:10:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:10:51: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:10:51: #2 number of paired peaks: 3207 INFO @ Thu, 08 Oct 2020 20:10:51: start model_add_line... INFO @ Thu, 08 Oct 2020 20:10:52: start X-correlation... INFO @ Thu, 08 Oct 2020 20:10:52: end of X-cor INFO @ Thu, 08 Oct 2020 20:10:52: #2 finished! INFO @ Thu, 08 Oct 2020 20:10:52: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 20:10:52: #2 alternative fragment length(s) may be 4,148 bps INFO @ Thu, 08 Oct 2020 20:10:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.10_model.r INFO @ Thu, 08 Oct 2020 20:10:52: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:10:52: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:10:56: 9000000 INFO @ Thu, 08 Oct 2020 20:11:03: 10000000 INFO @ Thu, 08 Oct 2020 20:11:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:11:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:11:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.05_summits.bed INFO @ Thu, 08 Oct 2020 20:11:06: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7367 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:11:10: 11000000 INFO @ Thu, 08 Oct 2020 20:11:17: 12000000 INFO @ Thu, 08 Oct 2020 20:11:19: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:11:19: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:11:19: #1 total tags in treatment: 12318398 INFO @ Thu, 08 Oct 2020 20:11:19: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:11:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:11:19: #1 tags after filtering in treatment: 12318398 INFO @ Thu, 08 Oct 2020 20:11:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:11:19: #1 finished! INFO @ Thu, 08 Oct 2020 20:11:19: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:11:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:11:21: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:11:21: #2 number of paired peaks: 3207 INFO @ Thu, 08 Oct 2020 20:11:21: start model_add_line... INFO @ Thu, 08 Oct 2020 20:11:21: start X-correlation... INFO @ Thu, 08 Oct 2020 20:11:21: end of X-cor INFO @ Thu, 08 Oct 2020 20:11:21: #2 finished! INFO @ Thu, 08 Oct 2020 20:11:21: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 20:11:21: #2 alternative fragment length(s) may be 4,148 bps INFO @ Thu, 08 Oct 2020 20:11:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.20_model.r INFO @ Thu, 08 Oct 2020 20:11:21: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:11:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:11:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:11:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:11:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.10_summits.bed INFO @ Thu, 08 Oct 2020 20:11:35: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5997 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:11:50: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:12:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:12:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:12:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832067/SRX8832067.20_summits.bed INFO @ Thu, 08 Oct 2020 20:12:04: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4297 records, 4 fields): 6 millis CompletedMACS2peakCalling