Job ID = 12264809 SRX = SRX7246266 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32073993 spots for SRR10564679/SRR10564679.sra Written 32073993 spots for SRR10564679/SRR10564679.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265636 ("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: 01:07:00 32073993 reads; of these: 32073993 (100.00%) were paired; of these: 18461396 (57.56%) aligned concordantly 0 times 12338505 (38.47%) aligned concordantly exactly 1 time 1274092 (3.97%) aligned concordantly >1 times ---- 18461396 pairs aligned concordantly 0 times; of these: 4854629 (26.30%) aligned discordantly 1 time ---- 13606767 pairs aligned 0 times concordantly or discordantly; of these: 27213534 mates make up the pairs; of these: 25574539 (93.98%) aligned 0 times 842497 (3.10%) aligned exactly 1 time 796498 (2.93%) aligned >1 times 60.13% overall alignment rate Time searching: 01:07:00 Overall time: 01:07:00 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 28 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 14836065 / 18323551 = 0.8097 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:42:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.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 @ Sat, 03 Apr 2021 07:42:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:42:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:42:42: 1000000 INFO @ Sat, 03 Apr 2021 07:42:56: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:42:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.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 @ Sat, 03 Apr 2021 07:42:58: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:42:58: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:43:10: 3000000 INFO @ Sat, 03 Apr 2021 07:43:14: 1000000 INFO @ Sat, 03 Apr 2021 07:43:25: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:43:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.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 @ Sat, 03 Apr 2021 07:43:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:43:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:43:29: 2000000 INFO @ Sat, 03 Apr 2021 07:43:40: 5000000 INFO @ Sat, 03 Apr 2021 07:43:44: 3000000 INFO @ Sat, 03 Apr 2021 07:43:44: 1000000 INFO @ Sat, 03 Apr 2021 07:43:55: 6000000 INFO @ Sat, 03 Apr 2021 07:44:00: 4000000 INFO @ Sat, 03 Apr 2021 07:44:00: 2000000 INFO @ Sat, 03 Apr 2021 07:44:11: 7000000 INFO @ Sat, 03 Apr 2021 07:44:15: 5000000 INFO @ Sat, 03 Apr 2021 07:44:16: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:44:27: 8000000 INFO @ Sat, 03 Apr 2021 07:44:31: 6000000 INFO @ Sat, 03 Apr 2021 07:44:32: 4000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:44:41: #1 tag size is determined as 150 bps INFO @ Sat, 03 Apr 2021 07:44:41: #1 tag size = 150 INFO @ Sat, 03 Apr 2021 07:44:41: #1 total tags in treatment: 2383510 INFO @ Sat, 03 Apr 2021 07:44:41: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:44:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:44:41: #1 tags after filtering in treatment: 1635244 INFO @ Sat, 03 Apr 2021 07:44:41: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 03 Apr 2021 07:44:41: #1 finished! INFO @ Sat, 03 Apr 2021 07:44:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:44:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:44:41: #2 number of paired peaks: 2332 INFO @ Sat, 03 Apr 2021 07:44:41: start model_add_line... INFO @ Sat, 03 Apr 2021 07:44:41: start X-correlation... INFO @ Sat, 03 Apr 2021 07:44:41: end of X-cor INFO @ Sat, 03 Apr 2021 07:44:41: #2 finished! INFO @ Sat, 03 Apr 2021 07:44:41: #2 predicted fragment length is 216 bps INFO @ Sat, 03 Apr 2021 07:44:41: #2 alternative fragment length(s) may be 216 bps INFO @ Sat, 03 Apr 2021 07:44:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.05_model.r WARNING @ Sat, 03 Apr 2021 07:44:41: #2 Since the d (216) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:44:41: #2 You may need to consider one of the other alternative d(s): 216 WARNING @ Sat, 03 Apr 2021 07:44:41: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:44:41: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:44:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:44:46: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:44:47: 7000000 INFO @ Sat, 03 Apr 2021 07:44:47: 5000000 INFO @ Sat, 03 Apr 2021 07:44:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:44:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:44:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.05_summits.bed INFO @ Sat, 03 Apr 2021 07:44:48: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (2479 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:45:01: 6000000 INFO @ Sat, 03 Apr 2021 07:45:02: 8000000 INFO @ Sat, 03 Apr 2021 07:45:15: #1 tag size is determined as 150 bps INFO @ Sat, 03 Apr 2021 07:45:15: #1 tag size = 150 INFO @ Sat, 03 Apr 2021 07:45:15: #1 total tags in treatment: 2383510 INFO @ Sat, 03 Apr 2021 07:45:15: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:45:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:45:15: #1 tags after filtering in treatment: 1635244 INFO @ Sat, 03 Apr 2021 07:45:15: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 03 Apr 2021 07:45:15: #1 finished! INFO @ Sat, 03 Apr 2021 07:45:15: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:45:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:45:15: #2 number of paired peaks: 2332 INFO @ Sat, 03 Apr 2021 07:45:15: start model_add_line... INFO @ Sat, 03 Apr 2021 07:45:15: start X-correlation... INFO @ Sat, 03 Apr 2021 07:45:15: end of X-cor INFO @ Sat, 03 Apr 2021 07:45:15: #2 finished! INFO @ Sat, 03 Apr 2021 07:45:15: #2 predicted fragment length is 216 bps INFO @ Sat, 03 Apr 2021 07:45:15: #2 alternative fragment length(s) may be 216 bps INFO @ Sat, 03 Apr 2021 07:45:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.10_model.r WARNING @ Sat, 03 Apr 2021 07:45:15: #2 Since the d (216) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:45:15: #2 You may need to consider one of the other alternative d(s): 216 WARNING @ Sat, 03 Apr 2021 07:45:15: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:45:15: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:45:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:45:16: 7000000 INFO @ Sat, 03 Apr 2021 07:45:20: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:45:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:45:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:45:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.10_summits.bed INFO @ Sat, 03 Apr 2021 07:45:22: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1503 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:45:31: 8000000 INFO @ Sat, 03 Apr 2021 07:45:43: #1 tag size is determined as 150 bps INFO @ Sat, 03 Apr 2021 07:45:43: #1 tag size = 150 INFO @ Sat, 03 Apr 2021 07:45:43: #1 total tags in treatment: 2383510 INFO @ Sat, 03 Apr 2021 07:45:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:45:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:45:43: #1 tags after filtering in treatment: 1635244 INFO @ Sat, 03 Apr 2021 07:45:43: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 03 Apr 2021 07:45:43: #1 finished! INFO @ Sat, 03 Apr 2021 07:45:43: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:45:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:45:43: #2 number of paired peaks: 2332 INFO @ Sat, 03 Apr 2021 07:45:43: start model_add_line... INFO @ Sat, 03 Apr 2021 07:45:43: start X-correlation... INFO @ Sat, 03 Apr 2021 07:45:43: end of X-cor INFO @ Sat, 03 Apr 2021 07:45:43: #2 finished! INFO @ Sat, 03 Apr 2021 07:45:43: #2 predicted fragment length is 216 bps INFO @ Sat, 03 Apr 2021 07:45:43: #2 alternative fragment length(s) may be 216 bps INFO @ Sat, 03 Apr 2021 07:45:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.20_model.r WARNING @ Sat, 03 Apr 2021 07:45:43: #2 Since the d (216) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:45:43: #2 You may need to consider one of the other alternative d(s): 216 WARNING @ Sat, 03 Apr 2021 07:45:43: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:45:43: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:45:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:45:48: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:45:50: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:45:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:45:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246266/SRX7246266.20_summits.bed INFO @ Sat, 03 Apr 2021 07:45:50: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (772 records, 4 fields): 3 millis CompletedMACS2peakCalling