Job ID = 16434655 SRX = SRX10925655 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:43 24657757 reads; of these: 24657757 (100.00%) were unpaired; of these: 9916883 (40.22%) aligned 0 times 10699928 (43.39%) aligned exactly 1 time 4040946 (16.39%) aligned >1 times 59.78% overall alignment rate Time searching: 00:07:43 Overall time: 00:07:43 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] 3977462 / 14740874 = 0.2698 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 10:06:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.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 @ Tue, 02 Aug 2022 10:06:13: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:13: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:23: 1000000 INFO @ Tue, 02 Aug 2022 10:06:32: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 10:06:41: 3000000 INFO @ Tue, 02 Aug 2022 10:06:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.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 @ Tue, 02 Aug 2022 10:06:42: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:42: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:50: 4000000 INFO @ Tue, 02 Aug 2022 10:06:52: 1000000 INFO @ Tue, 02 Aug 2022 10:06:58: 5000000 INFO @ Tue, 02 Aug 2022 10:07:01: 2000000 INFO @ Tue, 02 Aug 2022 10:07:07: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 10:07:09: 3000000 INFO @ Tue, 02 Aug 2022 10:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.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 @ Tue, 02 Aug 2022 10:07:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:07:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:07:16: 7000000 INFO @ Tue, 02 Aug 2022 10:07:19: 4000000 INFO @ Tue, 02 Aug 2022 10:07:22: 1000000 INFO @ Tue, 02 Aug 2022 10:07:25: 8000000 INFO @ Tue, 02 Aug 2022 10:07:28: 5000000 INFO @ Tue, 02 Aug 2022 10:07:32: 2000000 INFO @ Tue, 02 Aug 2022 10:07:34: 9000000 INFO @ Tue, 02 Aug 2022 10:07:37: 6000000 INFO @ Tue, 02 Aug 2022 10:07:42: 3000000 INFO @ Tue, 02 Aug 2022 10:07:43: 10000000 INFO @ Tue, 02 Aug 2022 10:07:46: 7000000 INFO @ Tue, 02 Aug 2022 10:07:50: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:07:50: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:07:50: #1 total tags in treatment: 10763412 INFO @ Tue, 02 Aug 2022 10:07:50: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:07:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 10:07:50: #1 tags after filtering in treatment: 10763412 INFO @ Tue, 02 Aug 2022 10:07:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:07:50: #1 finished! INFO @ Tue, 02 Aug 2022 10:07:50: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:07:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:07:51: #2 number of paired peaks: 3803 INFO @ Tue, 02 Aug 2022 10:07:51: start model_add_line... INFO @ Tue, 02 Aug 2022 10:07:51: start X-correlation... INFO @ Tue, 02 Aug 2022 10:07:51: end of X-cor INFO @ Tue, 02 Aug 2022 10:07:51: #2 finished! INFO @ Tue, 02 Aug 2022 10:07:51: #2 predicted fragment length is 206 bps INFO @ Tue, 02 Aug 2022 10:07:51: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 02 Aug 2022 10:07:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.05_model.r INFO @ Tue, 02 Aug 2022 10:07:51: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:07:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:07:52: 4000000 INFO @ Tue, 02 Aug 2022 10:07:55: 8000000 INFO @ Tue, 02 Aug 2022 10:08:01: 5000000 INFO @ Tue, 02 Aug 2022 10:08:04: 9000000 INFO @ Tue, 02 Aug 2022 10:08:11: 6000000 INFO @ Tue, 02 Aug 2022 10:08:13: 10000000 INFO @ Tue, 02 Aug 2022 10:08:20: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:08:20: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:08:20: #1 total tags in treatment: 10763412 INFO @ Tue, 02 Aug 2022 10:08:20: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:08:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 10:08:20: #1 tags after filtering in treatment: 10763412 INFO @ Tue, 02 Aug 2022 10:08:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:08:20: #1 finished! INFO @ Tue, 02 Aug 2022 10:08:20: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:08:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:08:21: 7000000 INFO @ Tue, 02 Aug 2022 10:08:21: #2 number of paired peaks: 3803 INFO @ Tue, 02 Aug 2022 10:08:21: start model_add_line... INFO @ Tue, 02 Aug 2022 10:08:21: start X-correlation... INFO @ Tue, 02 Aug 2022 10:08:22: end of X-cor INFO @ Tue, 02 Aug 2022 10:08:22: #2 finished! INFO @ Tue, 02 Aug 2022 10:08:22: #2 predicted fragment length is 206 bps INFO @ Tue, 02 Aug 2022 10:08:22: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 02 Aug 2022 10:08:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.10_model.r INFO @ Tue, 02 Aug 2022 10:08:22: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:08:22: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 10:08:27: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:08:31: 8000000 INFO @ Tue, 02 Aug 2022 10:08:40: 9000000 INFO @ Tue, 02 Aug 2022 10:08:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.05_peaks.xls INFO @ Tue, 02 Aug 2022 10:08:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:08:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.05_summits.bed INFO @ Tue, 02 Aug 2022 10:08:41: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (21509 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:08:50: 10000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 10:08:55: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:08:57: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:08:57: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:08:57: #1 total tags in treatment: 10763412 INFO @ Tue, 02 Aug 2022 10:08:57: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:08:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 10:08:57: #1 tags after filtering in treatment: 10763412 INFO @ Tue, 02 Aug 2022 10:08:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:08:57: #1 finished! INFO @ Tue, 02 Aug 2022 10:08:57: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:08:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:08:59: #2 number of paired peaks: 3803 INFO @ Tue, 02 Aug 2022 10:08:59: start model_add_line... INFO @ Tue, 02 Aug 2022 10:08:59: start X-correlation... INFO @ Tue, 02 Aug 2022 10:08:59: end of X-cor INFO @ Tue, 02 Aug 2022 10:08:59: #2 finished! INFO @ Tue, 02 Aug 2022 10:08:59: #2 predicted fragment length is 206 bps INFO @ Tue, 02 Aug 2022 10:08:59: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 02 Aug 2022 10:08:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.20_model.r INFO @ Tue, 02 Aug 2022 10:08:59: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:08:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:09:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.10_peaks.xls INFO @ Tue, 02 Aug 2022 10:09:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:09:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.10_summits.bed INFO @ Tue, 02 Aug 2022 10:09:07: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (14390 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:09:31: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:09:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.20_peaks.xls INFO @ Tue, 02 Aug 2022 10:09:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:09:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925655/SRX10925655.20_summits.bed INFO @ Tue, 02 Aug 2022 10:09:43: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6833 records, 4 fields): 22 millis CompletedMACS2peakCalling