Job ID = 16434568 SRX = SRX10925654 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: 00:07:55 22079937 reads; of these: 22079937 (100.00%) were unpaired; of these: 8803128 (39.87%) aligned 0 times 9743232 (44.13%) aligned exactly 1 time 3533577 (16.00%) aligned >1 times 60.13% overall alignment rate Time searching: 00:07:55 Overall time: 00:07:55 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] 3330259 / 13276809 = 0.2508 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 10:05:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.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 10:05:28: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:05:28: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:05:34: 1000000 INFO @ Tue, 02 Aug 2022 10:05:40: 2000000 INFO @ Tue, 02 Aug 2022 10:05:45: 3000000 INFO @ Tue, 02 Aug 2022 10:05:51: 4000000 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 10:05:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.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 10:05:57: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:05:57: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:05:57: 5000000 INFO @ Tue, 02 Aug 2022 10:06:02: 1000000 INFO @ Tue, 02 Aug 2022 10:06:03: 6000000 INFO @ Tue, 02 Aug 2022 10:06:07: 2000000 INFO @ Tue, 02 Aug 2022 10:06:10: 7000000 INFO @ Tue, 02 Aug 2022 10:06:13: 3000000 INFO @ Tue, 02 Aug 2022 10:06:16: 8000000 INFO @ Tue, 02 Aug 2022 10:06:18: 4000000 INFO @ Tue, 02 Aug 2022 10:06:23: 9000000 INFO @ Tue, 02 Aug 2022 10:06:23: 5000000 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 10:06:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.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 10:06:27: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:06:27: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:06:29: 6000000 INFO @ Tue, 02 Aug 2022 10:06:30: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:06:30: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:06:30: #1 total tags in treatment: 9946550 INFO @ Tue, 02 Aug 2022 10:06:30: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:06:30: #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 10:06:30: #1 tags after filtering in treatment: 9946550 INFO @ Tue, 02 Aug 2022 10:06:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:06:30: #1 finished! INFO @ Tue, 02 Aug 2022 10:06:30: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:06:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:06:31: #2 number of paired peaks: 3220 INFO @ Tue, 02 Aug 2022 10:06:31: start model_add_line... INFO @ Tue, 02 Aug 2022 10:06:31: start X-correlation... INFO @ Tue, 02 Aug 2022 10:06:31: end of X-cor INFO @ Tue, 02 Aug 2022 10:06:31: #2 finished! INFO @ Tue, 02 Aug 2022 10:06:31: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 10:06:31: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 10:06:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.05_model.r INFO @ Tue, 02 Aug 2022 10:06:31: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:06:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:06:34: 7000000 INFO @ Tue, 02 Aug 2022 10:06:35: 1000000 INFO @ Tue, 02 Aug 2022 10:06:40: 8000000 INFO @ Tue, 02 Aug 2022 10:06:42: 2000000 INFO @ Tue, 02 Aug 2022 10:06:47: 9000000 INFO @ Tue, 02 Aug 2022 10:06:50: 3000000 INFO @ Tue, 02 Aug 2022 10:06:56: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:06:56: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:06:56: #1 total tags in treatment: 9946550 INFO @ Tue, 02 Aug 2022 10:06:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:06:56: #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 10:06:56: #1 tags after filtering in treatment: 9946550 INFO @ Tue, 02 Aug 2022 10:06:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:06:56: #1 finished! INFO @ Tue, 02 Aug 2022 10:06:56: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:06:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:06:57: #2 number of paired peaks: 3220 INFO @ Tue, 02 Aug 2022 10:06:57: start model_add_line... INFO @ Tue, 02 Aug 2022 10:06:57: start X-correlation... INFO @ Tue, 02 Aug 2022 10:06:57: end of X-cor INFO @ Tue, 02 Aug 2022 10:06:57: #2 finished! INFO @ Tue, 02 Aug 2022 10:06:57: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 10:06:57: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 10:06:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.10_model.r INFO @ Tue, 02 Aug 2022 10:06:57: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:06:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:06:58: 4000000 INFO @ Tue, 02 Aug 2022 10:06:59: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:07:07: 5000000 INFO @ Tue, 02 Aug 2022 10:07:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.05_peaks.xls INFO @ Tue, 02 Aug 2022 10:07:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:07:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.05_summits.bed INFO @ Tue, 02 Aug 2022 10:07:12: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (21197 records, 4 fields): 111 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:07:16: 6000000 INFO @ Tue, 02 Aug 2022 10:07:25: 7000000 INFO @ Tue, 02 Aug 2022 10:07:27: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:07:33: 8000000 INFO @ Tue, 02 Aug 2022 10:07:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.10_peaks.xls INFO @ Tue, 02 Aug 2022 10:07:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:07:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.10_summits.bed INFO @ Tue, 02 Aug 2022 10:07:40: Done! pass1 - making usageList (6 chroms): 8 millis pass2 - checking and writing primary data (13149 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:07:42: 9000000 INFO @ Tue, 02 Aug 2022 10:07:51: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:07:51: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:07:51: #1 total tags in treatment: 9946550 INFO @ Tue, 02 Aug 2022 10:07:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:07:51: #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 10:07:51: #1 tags after filtering in treatment: 9946550 INFO @ Tue, 02 Aug 2022 10:07:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:07:51: #1 finished! INFO @ Tue, 02 Aug 2022 10:07:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:07:52: #2 number of paired peaks: 3220 INFO @ Tue, 02 Aug 2022 10:07:52: start model_add_line... INFO @ Tue, 02 Aug 2022 10:07:53: start X-correlation... INFO @ Tue, 02 Aug 2022 10:07:53: end of X-cor INFO @ Tue, 02 Aug 2022 10:07:53: #2 finished! INFO @ Tue, 02 Aug 2022 10:07:53: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 10:07:53: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 10:07:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.20_model.r INFO @ Tue, 02 Aug 2022 10:07:53: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:07:53: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 10:08:22: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:08:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.20_peaks.xls INFO @ Tue, 02 Aug 2022 10:08:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:08:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925654/SRX10925654.20_summits.bed INFO @ Tue, 02 Aug 2022 10:08:36: Done! pass1 - making usageList (6 chroms): 14 millis pass2 - checking and writing primary data (5214 records, 4 fields): 21 millis CompletedMACS2peakCalling BigWig に変換しました。