Job ID = 10165763 SRX = SRX8832110 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 19166326 spots for SRR12332034/SRR12332034.sra Written 19166326 spots for SRR12332034/SRR12332034.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166044 ("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: 00:03:34 19166326 reads; of these: 19166326 (100.00%) were unpaired; of these: 5386203 (28.10%) aligned 0 times 11290262 (58.91%) aligned exactly 1 time 2489861 (12.99%) aligned >1 times 71.90% overall alignment rate Time searching: 00:03:34 Overall time: 00:03:34 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_sort_core] merging from 8 files... [bam_rmdupse_core] 5018160 / 13780123 = 0.3642 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 19:56:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.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 19:56:34: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:34: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:38: 1000000 INFO @ Thu, 08 Oct 2020 19:56:43: 2000000 INFO @ Thu, 08 Oct 2020 19:56:47: 3000000 INFO @ Thu, 08 Oct 2020 19:56:51: 4000000 INFO @ Thu, 08 Oct 2020 19:56:56: 5000000 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 19:57:00: 6000000 INFO @ Thu, 08 Oct 2020 19:57:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.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 19:57:03: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:57:03: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:57:05: 7000000 INFO @ Thu, 08 Oct 2020 19:57:08: 1000000 INFO @ Thu, 08 Oct 2020 19:57:09: 8000000 INFO @ Thu, 08 Oct 2020 19:57:12: 2000000 INFO @ Thu, 08 Oct 2020 19:57:13: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:57:13: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:57:13: #1 total tags in treatment: 8761963 INFO @ Thu, 08 Oct 2020 19:57:13: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:13: #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 19:57:13: #1 tags after filtering in treatment: 8761963 INFO @ Thu, 08 Oct 2020 19:57:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:13: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:13: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:14: #2 number of paired peaks: 4992 INFO @ Thu, 08 Oct 2020 19:57:14: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:14: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:14: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:14: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:14: #2 predicted fragment length is 160 bps INFO @ Thu, 08 Oct 2020 19:57:14: #2 alternative fragment length(s) may be 160 bps INFO @ Thu, 08 Oct 2020 19:57:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.05_model.r INFO @ Thu, 08 Oct 2020 19:57:14: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:17: 3000000 INFO @ Thu, 08 Oct 2020 19:57:21: 4000000 INFO @ Thu, 08 Oct 2020 19:57:26: 5000000 BedGraph に変換中... INFO @ Thu, 08 Oct 2020 19:57:30: 6000000 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 19:57:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.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 19:57:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:57:33: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:57:35: 7000000 INFO @ Thu, 08 Oct 2020 19:57:35: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:57:38: 1000000 INFO @ Thu, 08 Oct 2020 19:57:39: 8000000 INFO @ Thu, 08 Oct 2020 19:57:42: 2000000 INFO @ Thu, 08 Oct 2020 19:57:43: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:57:43: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:57:43: #1 total tags in treatment: 8761963 INFO @ Thu, 08 Oct 2020 19:57:43: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:43: #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 19:57:43: #1 tags after filtering in treatment: 8761963 INFO @ Thu, 08 Oct 2020 19:57:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:43: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:43: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:44: #2 number of paired peaks: 4992 INFO @ Thu, 08 Oct 2020 19:57:44: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:44: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:44: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:44: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:44: #2 predicted fragment length is 160 bps INFO @ Thu, 08 Oct 2020 19:57:44: #2 alternative fragment length(s) may be 160 bps INFO @ Thu, 08 Oct 2020 19:57:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.10_model.r INFO @ Thu, 08 Oct 2020 19:57:44: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:44: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:57:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:57:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.05_summits.bed INFO @ Thu, 08 Oct 2020 19:57:45: Done! INFO @ Thu, 08 Oct 2020 19:57:47: 3000000 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (9969 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:57:51: 4000000 INFO @ Thu, 08 Oct 2020 19:57:56: 5000000 INFO @ Thu, 08 Oct 2020 19:58:00: 6000000 INFO @ Thu, 08 Oct 2020 19:58:04: 7000000 INFO @ Thu, 08 Oct 2020 19:58:07: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:58:09: 8000000 INFO @ Thu, 08 Oct 2020 19:58:12: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:58:12: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:58:12: #1 total tags in treatment: 8761963 INFO @ Thu, 08 Oct 2020 19:58:12: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:58:12: #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 19:58:12: #1 tags after filtering in treatment: 8761963 INFO @ Thu, 08 Oct 2020 19:58:12: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:58:12: #1 finished! INFO @ Thu, 08 Oct 2020 19:58:12: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:58:12: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:58:13: #2 number of paired peaks: 4992 INFO @ Thu, 08 Oct 2020 19:58:13: start model_add_line... INFO @ Thu, 08 Oct 2020 19:58:13: start X-correlation... INFO @ Thu, 08 Oct 2020 19:58:13: end of X-cor INFO @ Thu, 08 Oct 2020 19:58:13: #2 finished! INFO @ Thu, 08 Oct 2020 19:58:13: #2 predicted fragment length is 160 bps INFO @ Thu, 08 Oct 2020 19:58:13: #2 alternative fragment length(s) may be 160 bps INFO @ Thu, 08 Oct 2020 19:58:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.20_model.r INFO @ Thu, 08 Oct 2020 19:58:14: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:58:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:58:17: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:58:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:58:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.10_summits.bed INFO @ Thu, 08 Oct 2020 19:58:17: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8176 records, 4 fields): 9 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:58:36: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:58:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:58:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:58:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832110/SRX8832110.20_summits.bed INFO @ Thu, 08 Oct 2020 19:58:46: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6172 records, 4 fields): 8 millis CompletedMACS2peakCalling