Job ID = 14159442 SRX = SRX9120618 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: 00:08:04 33805134 reads; of these: 33805134 (100.00%) were unpaired; of these: 848157 (2.51%) aligned 0 times 27553351 (81.51%) aligned exactly 1 time 5403626 (15.98%) aligned >1 times 97.49% overall alignment rate Time searching: 00:08:04 Overall time: 00:08:04 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] 5894399 / 32956977 = 0.1789 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 @ Wed, 08 Dec 2021 22:09:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.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 @ Wed, 08 Dec 2021 22:09:46: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:09:46: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:09:53: 1000000 INFO @ Wed, 08 Dec 2021 22:10:00: 2000000 INFO @ Wed, 08 Dec 2021 22:10:07: 3000000 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 @ Wed, 08 Dec 2021 22:10:14: 4000000 INFO @ Wed, 08 Dec 2021 22:10:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.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 @ Wed, 08 Dec 2021 22:10:16: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:10:16: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:10:21: 5000000 INFO @ Wed, 08 Dec 2021 22:10:23: 1000000 INFO @ Wed, 08 Dec 2021 22:10:28: 6000000 INFO @ Wed, 08 Dec 2021 22:10:29: 2000000 INFO @ Wed, 08 Dec 2021 22:10:35: 7000000 INFO @ Wed, 08 Dec 2021 22:10:35: 3000000 INFO @ Wed, 08 Dec 2021 22:10:42: 8000000 INFO @ Wed, 08 Dec 2021 22:10:42: 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 @ Wed, 08 Dec 2021 22:10:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.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 @ Wed, 08 Dec 2021 22:10:46: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:10:46: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:10:48: 5000000 INFO @ Wed, 08 Dec 2021 22:10:49: 9000000 INFO @ Wed, 08 Dec 2021 22:10:53: 1000000 INFO @ Wed, 08 Dec 2021 22:10:55: 6000000 INFO @ Wed, 08 Dec 2021 22:10:56: 10000000 INFO @ Wed, 08 Dec 2021 22:11:01: 2000000 INFO @ Wed, 08 Dec 2021 22:11:01: 7000000 INFO @ Wed, 08 Dec 2021 22:11:03: 11000000 INFO @ Wed, 08 Dec 2021 22:11:07: 8000000 INFO @ Wed, 08 Dec 2021 22:11:08: 3000000 INFO @ Wed, 08 Dec 2021 22:11:10: 12000000 INFO @ Wed, 08 Dec 2021 22:11:14: 9000000 INFO @ Wed, 08 Dec 2021 22:11:15: 4000000 INFO @ Wed, 08 Dec 2021 22:11:18: 13000000 INFO @ Wed, 08 Dec 2021 22:11:20: 10000000 INFO @ Wed, 08 Dec 2021 22:11:22: 5000000 INFO @ Wed, 08 Dec 2021 22:11:25: 14000000 INFO @ Wed, 08 Dec 2021 22:11:27: 11000000 INFO @ Wed, 08 Dec 2021 22:11:30: 6000000 INFO @ Wed, 08 Dec 2021 22:11:33: 15000000 INFO @ Wed, 08 Dec 2021 22:11:33: 12000000 INFO @ Wed, 08 Dec 2021 22:11:37: 7000000 INFO @ Wed, 08 Dec 2021 22:11:40: 13000000 INFO @ Wed, 08 Dec 2021 22:11:40: 16000000 INFO @ Wed, 08 Dec 2021 22:11:43: 8000000 INFO @ Wed, 08 Dec 2021 22:11:46: 14000000 INFO @ Wed, 08 Dec 2021 22:11:47: 17000000 INFO @ Wed, 08 Dec 2021 22:11:51: 9000000 INFO @ Wed, 08 Dec 2021 22:11:53: 15000000 INFO @ Wed, 08 Dec 2021 22:11:54: 18000000 INFO @ Wed, 08 Dec 2021 22:11:58: 10000000 INFO @ Wed, 08 Dec 2021 22:11:59: 16000000 INFO @ Wed, 08 Dec 2021 22:12:01: 19000000 INFO @ Wed, 08 Dec 2021 22:12:05: 11000000 INFO @ Wed, 08 Dec 2021 22:12:05: 17000000 INFO @ Wed, 08 Dec 2021 22:12:08: 20000000 INFO @ Wed, 08 Dec 2021 22:12:12: 18000000 INFO @ Wed, 08 Dec 2021 22:12:12: 12000000 INFO @ Wed, 08 Dec 2021 22:12:16: 21000000 INFO @ Wed, 08 Dec 2021 22:12:18: 19000000 INFO @ Wed, 08 Dec 2021 22:12:19: 13000000 INFO @ Wed, 08 Dec 2021 22:12:23: 22000000 INFO @ Wed, 08 Dec 2021 22:12:24: 20000000 INFO @ Wed, 08 Dec 2021 22:12:26: 14000000 INFO @ Wed, 08 Dec 2021 22:12:30: 23000000 INFO @ Wed, 08 Dec 2021 22:12:31: 21000000 INFO @ Wed, 08 Dec 2021 22:12:34: 15000000 INFO @ Wed, 08 Dec 2021 22:12:37: 24000000 INFO @ Wed, 08 Dec 2021 22:12:37: 22000000 INFO @ Wed, 08 Dec 2021 22:12:41: 16000000 INFO @ Wed, 08 Dec 2021 22:12:44: 23000000 INFO @ Wed, 08 Dec 2021 22:12:44: 25000000 INFO @ Wed, 08 Dec 2021 22:12:48: 17000000 INFO @ Wed, 08 Dec 2021 22:12:50: 24000000 INFO @ Wed, 08 Dec 2021 22:12:52: 26000000 INFO @ Wed, 08 Dec 2021 22:12:55: 18000000 INFO @ Wed, 08 Dec 2021 22:12:57: 25000000 INFO @ Wed, 08 Dec 2021 22:12:59: 27000000 INFO @ Wed, 08 Dec 2021 22:13:00: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 22:13:00: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 22:13:00: #1 total tags in treatment: 27062578 INFO @ Wed, 08 Dec 2021 22:13:00: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:13:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:13:00: #1 tags after filtering in treatment: 27062578 INFO @ Wed, 08 Dec 2021 22:13:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 22:13:00: #1 finished! INFO @ Wed, 08 Dec 2021 22:13:00: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:13:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:13:02: #2 number of paired peaks: 101 WARNING @ Wed, 08 Dec 2021 22:13:02: Fewer paired peaks (101) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 101 pairs to build model! INFO @ Wed, 08 Dec 2021 22:13:02: start model_add_line... INFO @ Wed, 08 Dec 2021 22:13:02: 19000000 INFO @ Wed, 08 Dec 2021 22:13:02: start X-correlation... INFO @ Wed, 08 Dec 2021 22:13:02: end of X-cor INFO @ Wed, 08 Dec 2021 22:13:02: #2 finished! INFO @ Wed, 08 Dec 2021 22:13:02: #2 predicted fragment length is 0 bps INFO @ Wed, 08 Dec 2021 22:13:02: #2 alternative fragment length(s) may be 0,47,175,191,483,496,518,562,587 bps INFO @ Wed, 08 Dec 2021 22:13:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.05_model.r WARNING @ Wed, 08 Dec 2021 22:13:02: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 22:13:02: #2 You may need to consider one of the other alternative d(s): 0,47,175,191,483,496,518,562,587 WARNING @ Wed, 08 Dec 2021 22:13:02: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 22:13:02: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:13:02: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:13:03: 26000000 INFO @ Wed, 08 Dec 2021 22:13:09: 27000000 INFO @ Wed, 08 Dec 2021 22:13:10: 20000000 INFO @ Wed, 08 Dec 2021 22:13:10: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 22:13:10: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 22:13:10: #1 total tags in treatment: 27062578 INFO @ Wed, 08 Dec 2021 22:13:10: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:13:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:13:11: #1 tags after filtering in treatment: 27062578 INFO @ Wed, 08 Dec 2021 22:13:11: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 22:13:11: #1 finished! INFO @ Wed, 08 Dec 2021 22:13:11: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:13:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:13:13: #2 number of paired peaks: 101 WARNING @ Wed, 08 Dec 2021 22:13:13: Fewer paired peaks (101) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 101 pairs to build model! INFO @ Wed, 08 Dec 2021 22:13:13: start model_add_line... INFO @ Wed, 08 Dec 2021 22:13:13: start X-correlation... INFO @ Wed, 08 Dec 2021 22:13:13: end of X-cor INFO @ Wed, 08 Dec 2021 22:13:13: #2 finished! INFO @ Wed, 08 Dec 2021 22:13:13: #2 predicted fragment length is 0 bps INFO @ Wed, 08 Dec 2021 22:13:13: #2 alternative fragment length(s) may be 0,47,175,191,483,496,518,562,587 bps INFO @ Wed, 08 Dec 2021 22:13:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.10_model.r WARNING @ Wed, 08 Dec 2021 22:13:13: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 22:13:13: #2 You may need to consider one of the other alternative d(s): 0,47,175,191,483,496,518,562,587 WARNING @ Wed, 08 Dec 2021 22:13:13: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 22:13:13: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:13:13: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:13:17: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 22:13:23: 22000000 INFO @ Wed, 08 Dec 2021 22:13:30: 23000000 INFO @ Wed, 08 Dec 2021 22:13:37: 24000000 INFO @ Wed, 08 Dec 2021 22:13:44: 25000000 INFO @ Wed, 08 Dec 2021 22:13:51: 26000000 INFO @ Wed, 08 Dec 2021 22:13:59: 27000000 INFO @ Wed, 08 Dec 2021 22:13:59: #1 tag size is determined as 50 bps INFO @ Wed, 08 Dec 2021 22:13:59: #1 tag size = 50 INFO @ Wed, 08 Dec 2021 22:13:59: #1 total tags in treatment: 27062578 INFO @ Wed, 08 Dec 2021 22:13:59: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:13:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:14:00: #1 tags after filtering in treatment: 27062578 INFO @ Wed, 08 Dec 2021 22:14:00: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 22:14:00: #1 finished! INFO @ Wed, 08 Dec 2021 22:14:00: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:14:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:14:02: #2 number of paired peaks: 101 WARNING @ Wed, 08 Dec 2021 22:14:02: Fewer paired peaks (101) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 101 pairs to build model! INFO @ Wed, 08 Dec 2021 22:14:02: start model_add_line... INFO @ Wed, 08 Dec 2021 22:14:02: start X-correlation... INFO @ Wed, 08 Dec 2021 22:14:02: end of X-cor INFO @ Wed, 08 Dec 2021 22:14:02: #2 finished! INFO @ Wed, 08 Dec 2021 22:14:02: #2 predicted fragment length is 0 bps INFO @ Wed, 08 Dec 2021 22:14:02: #2 alternative fragment length(s) may be 0,47,175,191,483,496,518,562,587 bps INFO @ Wed, 08 Dec 2021 22:14:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX9120618/SRX9120618.20_model.r WARNING @ Wed, 08 Dec 2021 22:14:02: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Wed, 08 Dec 2021 22:14:02: #2 You may need to consider one of the other alternative d(s): 0,47,175,191,483,496,518,562,587 WARNING @ Wed, 08 Dec 2021 22:14:02: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Wed, 08 Dec 2021 22:14:02: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:14:02: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at077/job_scripts/14159442: line 297: 45427 Terminated MACS $i /var/spool/uge/at077/job_scripts/14159442: line 297: 50961 Terminated MACS $i /var/spool/uge/at077/job_scripts/14159442: line 297: 54322 Terminated MACS $i ls: cannot access SRX9120618.05.bed: No such file or directory mv: cannot stat ‘SRX9120618.05.bed’: No such file or directory mv: cannot stat ‘SRX9120618.05.bb’: No such file or directory ls: cannot access SRX9120618.10.bed: No such file or directory mv: cannot stat ‘SRX9120618.10.bed’: No such file or directory mv: cannot stat ‘SRX9120618.10.bb’: No such file or directory ls: cannot access SRX9120618.20.bed: No such file or directory mv: cannot stat ‘SRX9120618.20.bed’: No such file or directory mv: cannot stat ‘SRX9120618.20.bb’: No such file or directory