Job ID = 10166097 SRX = SRX9120614 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: 00:07:18 32219704 reads; of these: 32219704 (100.00%) were unpaired; of these: 95046 (0.29%) aligned 0 times 26908443 (83.52%) aligned exactly 1 time 5216215 (16.19%) aligned >1 times 99.71% overall alignment rate Time searching: 00:07:18 Overall time: 00:07:18 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 16 files... [bam_rmdupse_core] 5991888 / 32124658 = 0.1865 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 20:43:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.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 20:43:06: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:43:06: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:43:11: 1000000 INFO @ Thu, 08 Oct 2020 20:43:16: 2000000 INFO @ Thu, 08 Oct 2020 20:43:21: 3000000 INFO @ Thu, 08 Oct 2020 20:43:26: 4000000 INFO @ Thu, 08 Oct 2020 20:43:31: 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 20:43:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.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 20:43:36: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:43:36: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:43:36: 6000000 INFO @ Thu, 08 Oct 2020 20:43:42: 1000000 INFO @ Thu, 08 Oct 2020 20:43:42: 7000000 INFO @ Thu, 08 Oct 2020 20:43:47: 2000000 INFO @ Thu, 08 Oct 2020 20:43:47: 8000000 INFO @ Thu, 08 Oct 2020 20:43:53: 3000000 INFO @ Thu, 08 Oct 2020 20:43:53: 9000000 INFO @ Thu, 08 Oct 2020 20:43:59: 4000000 INFO @ Thu, 08 Oct 2020 20:43:59: 10000000 INFO @ Thu, 08 Oct 2020 20:44:04: 5000000 INFO @ Thu, 08 Oct 2020 20:44:04: 11000000 BedGraph に変換中... 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 20:44:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.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 20:44:06: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:44:06: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:44:10: 6000000 INFO @ Thu, 08 Oct 2020 20:44:10: 12000000 INFO @ Thu, 08 Oct 2020 20:44:12: 1000000 INFO @ Thu, 08 Oct 2020 20:44:15: 7000000 INFO @ Thu, 08 Oct 2020 20:44:16: 13000000 INFO @ Thu, 08 Oct 2020 20:44:18: 2000000 INFO @ Thu, 08 Oct 2020 20:44:21: 8000000 INFO @ Thu, 08 Oct 2020 20:44:21: 14000000 INFO @ Thu, 08 Oct 2020 20:44:23: 3000000 INFO @ Thu, 08 Oct 2020 20:44:27: 15000000 INFO @ Thu, 08 Oct 2020 20:44:27: 9000000 INFO @ Thu, 08 Oct 2020 20:44:29: 4000000 INFO @ Thu, 08 Oct 2020 20:44:32: 16000000 INFO @ Thu, 08 Oct 2020 20:44:32: 10000000 INFO @ Thu, 08 Oct 2020 20:44:35: 5000000 INFO @ Thu, 08 Oct 2020 20:44:38: 17000000 INFO @ Thu, 08 Oct 2020 20:44:38: 11000000 INFO @ Thu, 08 Oct 2020 20:44:40: 6000000 INFO @ Thu, 08 Oct 2020 20:44:43: 18000000 INFO @ Thu, 08 Oct 2020 20:44:44: 12000000 INFO @ Thu, 08 Oct 2020 20:44:46: 7000000 INFO @ Thu, 08 Oct 2020 20:44:49: 19000000 INFO @ Thu, 08 Oct 2020 20:44:49: 13000000 INFO @ Thu, 08 Oct 2020 20:44:52: 8000000 INFO @ Thu, 08 Oct 2020 20:44:55: 20000000 INFO @ Thu, 08 Oct 2020 20:44:55: 14000000 INFO @ Thu, 08 Oct 2020 20:44:58: 9000000 INFO @ Thu, 08 Oct 2020 20:45:00: 21000000 INFO @ Thu, 08 Oct 2020 20:45:00: 15000000 INFO @ Thu, 08 Oct 2020 20:45:03: 10000000 INFO @ Thu, 08 Oct 2020 20:45:06: 22000000 INFO @ Thu, 08 Oct 2020 20:45:06: 16000000 INFO @ Thu, 08 Oct 2020 20:45:09: 11000000 INFO @ Thu, 08 Oct 2020 20:45:11: 23000000 INFO @ Thu, 08 Oct 2020 20:45:12: 17000000 INFO @ Thu, 08 Oct 2020 20:45:15: 12000000 INFO @ Thu, 08 Oct 2020 20:45:17: 24000000 INFO @ Thu, 08 Oct 2020 20:45:18: 18000000 INFO @ Thu, 08 Oct 2020 20:45:21: 13000000 INFO @ Thu, 08 Oct 2020 20:45:22: 25000000 INFO @ Thu, 08 Oct 2020 20:45:23: 19000000 INFO @ Thu, 08 Oct 2020 20:45:27: 14000000 INFO @ Thu, 08 Oct 2020 20:45:28: 26000000 INFO @ Thu, 08 Oct 2020 20:45:29: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:45:29: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:45:29: #1 total tags in treatment: 26132770 INFO @ Thu, 08 Oct 2020 20:45:29: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:45:29: #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 20:45:29: 20000000 INFO @ Thu, 08 Oct 2020 20:45:29: #1 tags after filtering in treatment: 26132770 INFO @ Thu, 08 Oct 2020 20:45:29: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:45:29: #1 finished! INFO @ Thu, 08 Oct 2020 20:45:29: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:45:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:45:31: #2 number of paired peaks: 129 WARNING @ Thu, 08 Oct 2020 20:45:31: Fewer paired peaks (129) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 129 pairs to build model! INFO @ Thu, 08 Oct 2020 20:45:31: start model_add_line... INFO @ Thu, 08 Oct 2020 20:45:31: start X-correlation... INFO @ Thu, 08 Oct 2020 20:45:31: end of X-cor INFO @ Thu, 08 Oct 2020 20:45:31: #2 finished! INFO @ Thu, 08 Oct 2020 20:45:31: #2 predicted fragment length is 0 bps INFO @ Thu, 08 Oct 2020 20:45:31: #2 alternative fragment length(s) may be 0,43,506,528,556,583 bps INFO @ Thu, 08 Oct 2020 20:45:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.05_model.r WARNING @ Thu, 08 Oct 2020 20:45:31: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 20:45:31: #2 You may need to consider one of the other alternative d(s): 0,43,506,528,556,583 WARNING @ Thu, 08 Oct 2020 20:45:31: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 20:45:31: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:45:31: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:45:32: 15000000 INFO @ Thu, 08 Oct 2020 20:45:34: 21000000 INFO @ Thu, 08 Oct 2020 20:45:38: 16000000 INFO @ Thu, 08 Oct 2020 20:45:40: 22000000 INFO @ Thu, 08 Oct 2020 20:45:44: 17000000 INFO @ Thu, 08 Oct 2020 20:45:45: 23000000 INFO @ Thu, 08 Oct 2020 20:45:49: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:45:50: 24000000 INFO @ Thu, 08 Oct 2020 20:45:55: 19000000 INFO @ Thu, 08 Oct 2020 20:45:56: 25000000 INFO @ Thu, 08 Oct 2020 20:46:00: 20000000 INFO @ Thu, 08 Oct 2020 20:46:01: 26000000 INFO @ Thu, 08 Oct 2020 20:46:02: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:46:02: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:46:02: #1 total tags in treatment: 26132770 INFO @ Thu, 08 Oct 2020 20:46:02: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:46:02: #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 20:46:02: #1 tags after filtering in treatment: 26132770 INFO @ Thu, 08 Oct 2020 20:46:02: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:46:02: #1 finished! INFO @ Thu, 08 Oct 2020 20:46:02: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:46:02: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:46:04: #2 number of paired peaks: 129 WARNING @ Thu, 08 Oct 2020 20:46:04: Fewer paired peaks (129) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 129 pairs to build model! INFO @ Thu, 08 Oct 2020 20:46:04: start model_add_line... INFO @ Thu, 08 Oct 2020 20:46:04: start X-correlation... INFO @ Thu, 08 Oct 2020 20:46:04: end of X-cor INFO @ Thu, 08 Oct 2020 20:46:04: #2 finished! INFO @ Thu, 08 Oct 2020 20:46:04: #2 predicted fragment length is 0 bps INFO @ Thu, 08 Oct 2020 20:46:04: #2 alternative fragment length(s) may be 0,43,506,528,556,583 bps INFO @ Thu, 08 Oct 2020 20:46:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.10_model.r WARNING @ Thu, 08 Oct 2020 20:46:04: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 20:46:04: #2 You may need to consider one of the other alternative d(s): 0,43,506,528,556,583 WARNING @ Thu, 08 Oct 2020 20:46:04: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 20:46:04: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:46:04: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:46:06: 21000000 INFO @ Thu, 08 Oct 2020 20:46:11: 22000000 INFO @ Thu, 08 Oct 2020 20:46:16: 23000000 INFO @ Thu, 08 Oct 2020 20:46:21: 24000000 INFO @ Thu, 08 Oct 2020 20:46:27: 25000000 INFO @ Thu, 08 Oct 2020 20:46:32: 26000000 INFO @ Thu, 08 Oct 2020 20:46:33: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:46:33: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:46:33: #1 total tags in treatment: 26132770 INFO @ Thu, 08 Oct 2020 20:46:33: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:46:33: #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 20:46:33: #1 tags after filtering in treatment: 26132770 INFO @ Thu, 08 Oct 2020 20:46:33: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:46:33: #1 finished! INFO @ Thu, 08 Oct 2020 20:46:33: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:46:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:46:35: #2 number of paired peaks: 129 WARNING @ Thu, 08 Oct 2020 20:46:35: Fewer paired peaks (129) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 129 pairs to build model! INFO @ Thu, 08 Oct 2020 20:46:35: start model_add_line... INFO @ Thu, 08 Oct 2020 20:46:35: start X-correlation... INFO @ Thu, 08 Oct 2020 20:46:35: end of X-cor INFO @ Thu, 08 Oct 2020 20:46:35: #2 finished! INFO @ Thu, 08 Oct 2020 20:46:35: #2 predicted fragment length is 0 bps INFO @ Thu, 08 Oct 2020 20:46:35: #2 alternative fragment length(s) may be 0,43,506,528,556,583 bps INFO @ Thu, 08 Oct 2020 20:46:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120614/SRX9120614.20_model.r WARNING @ Thu, 08 Oct 2020 20:46:35: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 20:46:35: #2 You may need to consider one of the other alternative d(s): 0,43,506,528,556,583 WARNING @ Thu, 08 Oct 2020 20:46:35: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 20:46:35: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:46:35: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at152/job_scripts/10166097: line 297: 15036 Terminated MACS $i /var/spool/uge/at152/job_scripts/10166097: line 297: 30225 Terminated MACS $i /var/spool/uge/at152/job_scripts/10166097: line 297: 40013 Terminated MACS $i ls: cannot access SRX9120614.05.bed: No such file or directory mv: cannot stat ‘SRX9120614.05.bed’: No such file or directory mv: cannot stat ‘SRX9120614.05.bb’: No such file or directory ls: cannot access SRX9120614.10.bed: No such file or directory mv: cannot stat ‘SRX9120614.10.bed’: No such file or directory mv: cannot stat ‘SRX9120614.10.bb’: No such file or directory ls: cannot access SRX9120614.20.bed: No such file or directory mv: cannot stat ‘SRX9120614.20.bed’: No such file or directory mv: cannot stat ‘SRX9120614.20.bb’: No such file or directory