Job ID = 16434216 SRX = SRX10925649 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: 00:04:25 23424289 reads; of these: 23424289 (100.00%) were unpaired; of these: 13683322 (58.42%) aligned 0 times 8653645 (36.94%) aligned exactly 1 time 1087322 (4.64%) aligned >1 times 41.58% overall alignment rate Time searching: 00:04:25 Overall time: 00:04:25 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] 2115309 / 9740967 = 0.2172 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 09:55:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.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 09:55:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:55:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:55:53: 1000000 INFO @ Tue, 02 Aug 2022 09:55:58: 2000000 INFO @ Tue, 02 Aug 2022 09:56:04: 3000000 INFO @ Tue, 02 Aug 2022 09:56:09: 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 09:56:15: 5000000 INFO @ Tue, 02 Aug 2022 09:56:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.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 09:56:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:56:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:56:21: 6000000 INFO @ Tue, 02 Aug 2022 09:56:24: 1000000 INFO @ Tue, 02 Aug 2022 09:56:29: 7000000 INFO @ Tue, 02 Aug 2022 09:56:32: 2000000 INFO @ Tue, 02 Aug 2022 09:56:33: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:56:33: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:56:33: #1 total tags in treatment: 7625658 INFO @ Tue, 02 Aug 2022 09:56:33: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:56:33: #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 09:56:33: #1 tags after filtering in treatment: 7625658 INFO @ Tue, 02 Aug 2022 09:56:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:56:33: #1 finished! INFO @ Tue, 02 Aug 2022 09:56:33: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:56:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:56:34: #2 number of paired peaks: 7486 INFO @ Tue, 02 Aug 2022 09:56:34: start model_add_line... INFO @ Tue, 02 Aug 2022 09:56:34: start X-correlation... INFO @ Tue, 02 Aug 2022 09:56:34: end of X-cor INFO @ Tue, 02 Aug 2022 09:56:34: #2 finished! INFO @ Tue, 02 Aug 2022 09:56:34: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:56:34: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:56:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.05_model.r INFO @ Tue, 02 Aug 2022 09:56:34: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:56:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:56:39: 3000000 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 09:56:45: 4000000 INFO @ Tue, 02 Aug 2022 09:56:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.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 09:56:46: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:56:46: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:56:52: 5000000 INFO @ Tue, 02 Aug 2022 09:56:53: 1000000 INFO @ Tue, 02 Aug 2022 09:56:59: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:56:59: 6000000 INFO @ Tue, 02 Aug 2022 09:57:00: 2000000 INFO @ Tue, 02 Aug 2022 09:57:07: 7000000 INFO @ Tue, 02 Aug 2022 09:57:07: 3000000 INFO @ Tue, 02 Aug 2022 09:57:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:57:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:57:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.05_summits.bed INFO @ Tue, 02 Aug 2022 09:57:09: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (12107 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:57:11: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:57:11: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:57:11: #1 total tags in treatment: 7625658 INFO @ Tue, 02 Aug 2022 09:57:11: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:57:11: #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 09:57:11: #1 tags after filtering in treatment: 7625658 INFO @ Tue, 02 Aug 2022 09:57:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:57:11: #1 finished! INFO @ Tue, 02 Aug 2022 09:57:11: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:57:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:57:12: #2 number of paired peaks: 7486 INFO @ Tue, 02 Aug 2022 09:57:12: start model_add_line... INFO @ Tue, 02 Aug 2022 09:57:12: start X-correlation... INFO @ Tue, 02 Aug 2022 09:57:12: end of X-cor INFO @ Tue, 02 Aug 2022 09:57:12: #2 finished! INFO @ Tue, 02 Aug 2022 09:57:12: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:57:12: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:57:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.10_model.r INFO @ Tue, 02 Aug 2022 09:57:12: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:57:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:57:14: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:57:20: 5000000 INFO @ Tue, 02 Aug 2022 09:57:26: 6000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:57:32: 7000000 INFO @ Tue, 02 Aug 2022 09:57:35: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:57:35: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:57:35: #1 total tags in treatment: 7625658 INFO @ Tue, 02 Aug 2022 09:57:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:57:35: #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 09:57:35: #1 tags after filtering in treatment: 7625658 INFO @ Tue, 02 Aug 2022 09:57:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:57:35: #1 finished! INFO @ Tue, 02 Aug 2022 09:57:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:57:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:57:36: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:57:36: #2 number of paired peaks: 7486 INFO @ Tue, 02 Aug 2022 09:57:36: start model_add_line... INFO @ Tue, 02 Aug 2022 09:57:37: start X-correlation... INFO @ Tue, 02 Aug 2022 09:57:37: end of X-cor INFO @ Tue, 02 Aug 2022 09:57:37: #2 finished! INFO @ Tue, 02 Aug 2022 09:57:37: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:57:37: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:57:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.20_model.r INFO @ Tue, 02 Aug 2022 09:57:37: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:57:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:57:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:57:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:57:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.10_summits.bed INFO @ Tue, 02 Aug 2022 09:57:46: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (9450 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:58:01: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:58:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:58:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:58:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX10925649/SRX10925649.20_summits.bed INFO @ Tue, 02 Aug 2022 09:58:11: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6277 records, 4 fields): 15 millis CompletedMACS2peakCalling