Job ID = 16434789 SRX = SRX10925683 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 23315447 spots for SRR14580051/SRR14580051.sra Written 23315447 spots for SRR14580051/SRR14580051.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434862 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:34 23315447 reads; of these: 23315447 (100.00%) were unpaired; of these: 13919955 (59.70%) aligned 0 times 8377131 (35.93%) aligned exactly 1 time 1018361 (4.37%) aligned >1 times 40.30% overall alignment rate Time searching: 00:05:34 Overall time: 00:05:34 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_rmdupse_core] 1913378 / 9395492 = 0.2036 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 10:04:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.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 10:04:30: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:04:30: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:04:38: 1000000 INFO @ Tue, 02 Aug 2022 10:04:44: 2000000 INFO @ Tue, 02 Aug 2022 10:04:51: 3000000 INFO @ Tue, 02 Aug 2022 10:04:58: 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 10:05:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.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 10:05:00: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:05:00: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:05:05: 5000000 INFO @ Tue, 02 Aug 2022 10:05:07: 1000000 INFO @ Tue, 02 Aug 2022 10:05:12: 6000000 INFO @ Tue, 02 Aug 2022 10:05:14: 2000000 INFO @ Tue, 02 Aug 2022 10:05:19: 7000000 INFO @ Tue, 02 Aug 2022 10:05:21: 3000000 INFO @ Tue, 02 Aug 2022 10:05:23: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:05:23: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:05:23: #1 total tags in treatment: 7482114 INFO @ Tue, 02 Aug 2022 10:05:23: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:05:23: #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 10:05:23: #1 tags after filtering in treatment: 7482114 INFO @ Tue, 02 Aug 2022 10:05:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:05:23: #1 finished! INFO @ Tue, 02 Aug 2022 10:05:23: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:05:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:05:24: #2 number of paired peaks: 7394 INFO @ Tue, 02 Aug 2022 10:05:24: start model_add_line... INFO @ Tue, 02 Aug 2022 10:05:24: start X-correlation... INFO @ Tue, 02 Aug 2022 10:05:24: end of X-cor INFO @ Tue, 02 Aug 2022 10:05:24: #2 finished! INFO @ Tue, 02 Aug 2022 10:05:24: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 10:05:24: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 10:05:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.05_model.r INFO @ Tue, 02 Aug 2022 10:05:24: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:05:24: #3 Pre-compute pvalue-qvalue table... 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 10:05:28: 4000000 INFO @ Tue, 02 Aug 2022 10:05:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.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 10:05:30: #1 read tag files... INFO @ Tue, 02 Aug 2022 10:05:30: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 10:05:35: 5000000 INFO @ Tue, 02 Aug 2022 10:05:38: 1000000 INFO @ Tue, 02 Aug 2022 10:05:43: 6000000 INFO @ Tue, 02 Aug 2022 10:05:46: 2000000 INFO @ Tue, 02 Aug 2022 10:05:51: 7000000 INFO @ Tue, 02 Aug 2022 10:05:52: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:05:53: 3000000 INFO @ Tue, 02 Aug 2022 10:05:55: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:05:55: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:05:55: #1 total tags in treatment: 7482114 INFO @ Tue, 02 Aug 2022 10:05:55: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:05:55: #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 10:05:55: #1 tags after filtering in treatment: 7482114 INFO @ Tue, 02 Aug 2022 10:05:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:05:55: #1 finished! INFO @ Tue, 02 Aug 2022 10:05:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:05:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:05:57: #2 number of paired peaks: 7394 INFO @ Tue, 02 Aug 2022 10:05:57: start model_add_line... INFO @ Tue, 02 Aug 2022 10:05:57: start X-correlation... INFO @ Tue, 02 Aug 2022 10:05:57: end of X-cor INFO @ Tue, 02 Aug 2022 10:05:57: #2 finished! INFO @ Tue, 02 Aug 2022 10:05:57: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 10:05:57: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 10:05:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.10_model.r INFO @ Tue, 02 Aug 2022 10:05:57: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:05:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 10:06:00: 4000000 INFO @ Tue, 02 Aug 2022 10:06:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.05_peaks.xls INFO @ Tue, 02 Aug 2022 10:06:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:06:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.05_summits.bed INFO @ Tue, 02 Aug 2022 10:06:02: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (11924 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:06:07: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 10:06:14: 6000000 INFO @ Tue, 02 Aug 2022 10:06:21: 7000000 INFO @ Tue, 02 Aug 2022 10:06:25: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 10:06:25: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 10:06:25: #1 total tags in treatment: 7482114 INFO @ Tue, 02 Aug 2022 10:06:25: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 10:06:25: #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 10:06:25: #1 tags after filtering in treatment: 7482114 INFO @ Tue, 02 Aug 2022 10:06:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 10:06:25: #1 finished! INFO @ Tue, 02 Aug 2022 10:06:25: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 10:06:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 10:06:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:06:26: #2 number of paired peaks: 7394 INFO @ Tue, 02 Aug 2022 10:06:26: start model_add_line... INFO @ Tue, 02 Aug 2022 10:06:26: start X-correlation... INFO @ Tue, 02 Aug 2022 10:06:26: end of X-cor INFO @ Tue, 02 Aug 2022 10:06:26: #2 finished! INFO @ Tue, 02 Aug 2022 10:06:26: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 10:06:26: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 10:06:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.20_model.r INFO @ Tue, 02 Aug 2022 10:06:26: #3 Call peaks... INFO @ Tue, 02 Aug 2022 10:06:26: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 10:06:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.10_peaks.xls INFO @ Tue, 02 Aug 2022 10:06:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:06:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.10_summits.bed INFO @ Tue, 02 Aug 2022 10:06:35: Done! pass1 - making usageList (6 chroms): 8 millis pass2 - checking and writing primary data (9216 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 10:06:55: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 10:07:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.20_peaks.xls INFO @ Tue, 02 Aug 2022 10:07:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 10:07:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925683/SRX10925683.20_summits.bed INFO @ Tue, 02 Aug 2022 10:07:05: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5900 records, 4 fields): 24 millis CompletedMACS2peakCalling