Job ID = 14160552 SRX = SRX8151890 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: 00:04:44 21665093 reads; of these: 21665093 (100.00%) were unpaired; of these: 1611064 (7.44%) aligned 0 times 16739359 (77.26%) aligned exactly 1 time 3314670 (15.30%) aligned >1 times 92.56% overall alignment rate Time searching: 00:04:44 Overall time: 00:04:44 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 12 files... [bam_rmdupse_core] 1841921 / 20054029 = 0.0918 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:19:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.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, 09 Dec 2021 03:19:35: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:19:35: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:19:40: 1000000 INFO @ Thu, 09 Dec 2021 03:19:45: 2000000 INFO @ Thu, 09 Dec 2021 03:19:50: 3000000 INFO @ Thu, 09 Dec 2021 03:19:55: 4000000 INFO @ Thu, 09 Dec 2021 03:20:00: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:20:05: 6000000 INFO @ Thu, 09 Dec 2021 03:20:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.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, 09 Dec 2021 03:20:05: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:20:05: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:20:11: 7000000 INFO @ Thu, 09 Dec 2021 03:20:11: 1000000 INFO @ Thu, 09 Dec 2021 03:20:16: 8000000 INFO @ Thu, 09 Dec 2021 03:20:17: 2000000 INFO @ Thu, 09 Dec 2021 03:20:22: 9000000 INFO @ Thu, 09 Dec 2021 03:20:22: 3000000 INFO @ Thu, 09 Dec 2021 03:20:28: 10000000 INFO @ Thu, 09 Dec 2021 03:20:28: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:20:33: 11000000 INFO @ Thu, 09 Dec 2021 03:20:34: 5000000 INFO @ Thu, 09 Dec 2021 03:20:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.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, 09 Dec 2021 03:20:35: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:20:35: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:20:39: 12000000 INFO @ Thu, 09 Dec 2021 03:20:39: 6000000 INFO @ Thu, 09 Dec 2021 03:20:41: 1000000 INFO @ Thu, 09 Dec 2021 03:20:45: 13000000 INFO @ Thu, 09 Dec 2021 03:20:45: 7000000 INFO @ Thu, 09 Dec 2021 03:20:47: 2000000 INFO @ Thu, 09 Dec 2021 03:20:50: 14000000 INFO @ Thu, 09 Dec 2021 03:20:51: 8000000 INFO @ Thu, 09 Dec 2021 03:20:53: 3000000 INFO @ Thu, 09 Dec 2021 03:20:56: 15000000 INFO @ Thu, 09 Dec 2021 03:20:56: 9000000 INFO @ Thu, 09 Dec 2021 03:20:58: 4000000 INFO @ Thu, 09 Dec 2021 03:21:02: 16000000 INFO @ Thu, 09 Dec 2021 03:21:02: 10000000 INFO @ Thu, 09 Dec 2021 03:21:04: 5000000 INFO @ Thu, 09 Dec 2021 03:21:08: 17000000 INFO @ Thu, 09 Dec 2021 03:21:08: 11000000 INFO @ Thu, 09 Dec 2021 03:21:10: 6000000 INFO @ Thu, 09 Dec 2021 03:21:13: 18000000 INFO @ Thu, 09 Dec 2021 03:21:13: 12000000 INFO @ Thu, 09 Dec 2021 03:21:14: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 03:21:14: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 03:21:14: #1 total tags in treatment: 18212108 INFO @ Thu, 09 Dec 2021 03:21:14: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:21:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:21:15: #1 tags after filtering in treatment: 18212108 INFO @ Thu, 09 Dec 2021 03:21:15: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:21:15: #1 finished! INFO @ Thu, 09 Dec 2021 03:21:15: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:21:15: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:21:16: 7000000 INFO @ Thu, 09 Dec 2021 03:21:16: #2 number of paired peaks: 205 WARNING @ Thu, 09 Dec 2021 03:21:16: Fewer paired peaks (205) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 205 pairs to build model! INFO @ Thu, 09 Dec 2021 03:21:16: start model_add_line... INFO @ Thu, 09 Dec 2021 03:21:16: start X-correlation... INFO @ Thu, 09 Dec 2021 03:21:16: end of X-cor INFO @ Thu, 09 Dec 2021 03:21:16: #2 finished! INFO @ Thu, 09 Dec 2021 03:21:16: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:21:16: #2 alternative fragment length(s) may be 1,33,568,590 bps INFO @ Thu, 09 Dec 2021 03:21:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.05_model.r WARNING @ Thu, 09 Dec 2021 03:21:16: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:21:16: #2 You may need to consider one of the other alternative d(s): 1,33,568,590 WARNING @ Thu, 09 Dec 2021 03:21:16: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:21:16: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:21:16: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:21:19: 13000000 INFO @ Thu, 09 Dec 2021 03:21:21: 8000000 INFO @ Thu, 09 Dec 2021 03:21:25: 14000000 INFO @ Thu, 09 Dec 2021 03:21:27: 9000000 INFO @ Thu, 09 Dec 2021 03:21:30: 15000000 INFO @ Thu, 09 Dec 2021 03:21:33: 10000000 INFO @ Thu, 09 Dec 2021 03:21:36: 16000000 INFO @ Thu, 09 Dec 2021 03:21:38: 11000000 INFO @ Thu, 09 Dec 2021 03:21:42: 17000000 INFO @ Thu, 09 Dec 2021 03:21:44: 12000000 INFO @ Thu, 09 Dec 2021 03:21:46: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:21:47: 18000000 INFO @ Thu, 09 Dec 2021 03:21:49: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 03:21:49: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 03:21:49: #1 total tags in treatment: 18212108 INFO @ Thu, 09 Dec 2021 03:21:49: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:21:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:21:49: #1 tags after filtering in treatment: 18212108 INFO @ Thu, 09 Dec 2021 03:21:49: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:21:49: #1 finished! INFO @ Thu, 09 Dec 2021 03:21:49: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:21:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:21:50: 13000000 INFO @ Thu, 09 Dec 2021 03:21:50: #2 number of paired peaks: 205 WARNING @ Thu, 09 Dec 2021 03:21:50: Fewer paired peaks (205) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 205 pairs to build model! INFO @ Thu, 09 Dec 2021 03:21:50: start model_add_line... INFO @ Thu, 09 Dec 2021 03:21:50: start X-correlation... INFO @ Thu, 09 Dec 2021 03:21:50: end of X-cor INFO @ Thu, 09 Dec 2021 03:21:50: #2 finished! INFO @ Thu, 09 Dec 2021 03:21:50: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:21:50: #2 alternative fragment length(s) may be 1,33,568,590 bps INFO @ Thu, 09 Dec 2021 03:21:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.10_model.r WARNING @ Thu, 09 Dec 2021 03:21:50: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:21:50: #2 You may need to consider one of the other alternative d(s): 1,33,568,590 WARNING @ Thu, 09 Dec 2021 03:21:50: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:21:50: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:21:50: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:21:55: 14000000 INFO @ Thu, 09 Dec 2021 03:21:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:21:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:21:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.05_summits.bed INFO @ Thu, 09 Dec 2021 03:21:59: Done! INFO @ Thu, 09 Dec 2021 03:22:01: 15000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:22:06: 16000000 INFO @ Thu, 09 Dec 2021 03:22:12: 17000000 INFO @ Thu, 09 Dec 2021 03:22:17: 18000000 INFO @ Thu, 09 Dec 2021 03:22:19: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 03:22:19: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 03:22:19: #1 total tags in treatment: 18212108 INFO @ Thu, 09 Dec 2021 03:22:19: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:22:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:22:19: #1 tags after filtering in treatment: 18212108 INFO @ Thu, 09 Dec 2021 03:22:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:22:19: #1 finished! INFO @ Thu, 09 Dec 2021 03:22:19: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:22:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:22:19: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:22:20: #2 number of paired peaks: 205 WARNING @ Thu, 09 Dec 2021 03:22:20: Fewer paired peaks (205) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 205 pairs to build model! INFO @ Thu, 09 Dec 2021 03:22:20: start model_add_line... INFO @ Thu, 09 Dec 2021 03:22:20: start X-correlation... INFO @ Thu, 09 Dec 2021 03:22:20: end of X-cor INFO @ Thu, 09 Dec 2021 03:22:20: #2 finished! INFO @ Thu, 09 Dec 2021 03:22:20: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:22:20: #2 alternative fragment length(s) may be 1,33,568,590 bps INFO @ Thu, 09 Dec 2021 03:22:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.20_model.r WARNING @ Thu, 09 Dec 2021 03:22:20: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:22:20: #2 You may need to consider one of the other alternative d(s): 1,33,568,590 WARNING @ Thu, 09 Dec 2021 03:22:20: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:22:20: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:22:20: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:22:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:22:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:22:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.10_summits.bed INFO @ Thu, 09 Dec 2021 03:22:33: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:22:49: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:23:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:23:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:23:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8151890/SRX8151890.20_summits.bed INFO @ Thu, 09 Dec 2021 03:23:03: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling