Job ID = 6529106 SRX = SRX494833 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: 00:05:02 30788149 reads; of these: 30788149 (100.00%) were unpaired; of these: 169805 (0.55%) aligned 0 times 25275354 (82.09%) aligned exactly 1 time 5342990 (17.35%) aligned >1 times 99.45% overall alignment rate Time searching: 00:05:02 Overall time: 00:05:02 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] 4711440 / 30618344 = 0.1539 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 @ Tue, 30 Jun 2020 01:27:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.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 @ Tue, 30 Jun 2020 01:27:45: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:27:45: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:27:51: 1000000 INFO @ Tue, 30 Jun 2020 01:27:57: 2000000 INFO @ Tue, 30 Jun 2020 01:28:03: 3000000 INFO @ Tue, 30 Jun 2020 01:28:09: 4000000 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 @ Tue, 30 Jun 2020 01:28:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.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 @ Tue, 30 Jun 2020 01:28:15: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:28:15: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:28:15: 5000000 INFO @ Tue, 30 Jun 2020 01:28:21: 1000000 INFO @ Tue, 30 Jun 2020 01:28:21: 6000000 INFO @ Tue, 30 Jun 2020 01:28:27: 2000000 INFO @ Tue, 30 Jun 2020 01:28:27: 7000000 INFO @ Tue, 30 Jun 2020 01:28:34: 8000000 INFO @ Tue, 30 Jun 2020 01:28:34: 3000000 INFO @ Tue, 30 Jun 2020 01:28:40: 9000000 INFO @ Tue, 30 Jun 2020 01:28:40: 4000000 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 @ Tue, 30 Jun 2020 01:28:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.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 @ Tue, 30 Jun 2020 01:28:45: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:28:45: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:28:46: 10000000 INFO @ Tue, 30 Jun 2020 01:28:46: 5000000 INFO @ Tue, 30 Jun 2020 01:28:52: 1000000 INFO @ Tue, 30 Jun 2020 01:28:53: 11000000 INFO @ Tue, 30 Jun 2020 01:28:53: 6000000 INFO @ Tue, 30 Jun 2020 01:28:58: 2000000 INFO @ Tue, 30 Jun 2020 01:28:59: 7000000 INFO @ Tue, 30 Jun 2020 01:28:59: 12000000 INFO @ Tue, 30 Jun 2020 01:29:05: 3000000 INFO @ Tue, 30 Jun 2020 01:29:05: 8000000 INFO @ Tue, 30 Jun 2020 01:29:06: 13000000 INFO @ Tue, 30 Jun 2020 01:29:11: 4000000 INFO @ Tue, 30 Jun 2020 01:29:12: 9000000 INFO @ Tue, 30 Jun 2020 01:29:12: 14000000 INFO @ Tue, 30 Jun 2020 01:29:18: 5000000 INFO @ Tue, 30 Jun 2020 01:29:18: 10000000 INFO @ Tue, 30 Jun 2020 01:29:18: 15000000 INFO @ Tue, 30 Jun 2020 01:29:24: 11000000 INFO @ Tue, 30 Jun 2020 01:29:24: 6000000 INFO @ Tue, 30 Jun 2020 01:29:25: 16000000 INFO @ Tue, 30 Jun 2020 01:29:30: 12000000 INFO @ Tue, 30 Jun 2020 01:29:31: 7000000 INFO @ Tue, 30 Jun 2020 01:29:31: 17000000 INFO @ Tue, 30 Jun 2020 01:29:37: 13000000 INFO @ Tue, 30 Jun 2020 01:29:38: 8000000 INFO @ Tue, 30 Jun 2020 01:29:38: 18000000 INFO @ Tue, 30 Jun 2020 01:29:43: 14000000 INFO @ Tue, 30 Jun 2020 01:29:44: 19000000 INFO @ Tue, 30 Jun 2020 01:29:44: 9000000 INFO @ Tue, 30 Jun 2020 01:29:49: 15000000 INFO @ Tue, 30 Jun 2020 01:29:50: 20000000 INFO @ Tue, 30 Jun 2020 01:29:51: 10000000 INFO @ Tue, 30 Jun 2020 01:29:56: 16000000 INFO @ Tue, 30 Jun 2020 01:29:57: 21000000 INFO @ Tue, 30 Jun 2020 01:29:57: 11000000 INFO @ Tue, 30 Jun 2020 01:30:02: 17000000 INFO @ Tue, 30 Jun 2020 01:30:03: 22000000 INFO @ Tue, 30 Jun 2020 01:30:04: 12000000 INFO @ Tue, 30 Jun 2020 01:30:08: 18000000 INFO @ Tue, 30 Jun 2020 01:30:10: 23000000 INFO @ Tue, 30 Jun 2020 01:30:11: 13000000 INFO @ Tue, 30 Jun 2020 01:30:15: 19000000 INFO @ Tue, 30 Jun 2020 01:30:16: 24000000 INFO @ Tue, 30 Jun 2020 01:30:17: 14000000 INFO @ Tue, 30 Jun 2020 01:30:21: 20000000 INFO @ Tue, 30 Jun 2020 01:30:23: 25000000 INFO @ Tue, 30 Jun 2020 01:30:24: 15000000 INFO @ Tue, 30 Jun 2020 01:30:27: 21000000 INFO @ Tue, 30 Jun 2020 01:30:28: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:30:28: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:30:28: #1 total tags in treatment: 25906904 INFO @ Tue, 30 Jun 2020 01:30:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:30:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:30:29: #1 tags after filtering in treatment: 25906904 INFO @ Tue, 30 Jun 2020 01:30:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:30:29: #1 finished! INFO @ Tue, 30 Jun 2020 01:30:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:30:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:30:31: 16000000 INFO @ Tue, 30 Jun 2020 01:30:31: #2 number of paired peaks: 150 WARNING @ Tue, 30 Jun 2020 01:30:31: Fewer paired peaks (150) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 150 pairs to build model! INFO @ Tue, 30 Jun 2020 01:30:31: start model_add_line... INFO @ Tue, 30 Jun 2020 01:30:31: start X-correlation... INFO @ Tue, 30 Jun 2020 01:30:31: end of X-cor INFO @ Tue, 30 Jun 2020 01:30:31: #2 finished! INFO @ Tue, 30 Jun 2020 01:30:31: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:30:31: #2 alternative fragment length(s) may be 0,11,13,30,197,447,449,491,569 bps INFO @ Tue, 30 Jun 2020 01:30:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.05_model.r WARNING @ Tue, 30 Jun 2020 01:30:31: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:30:31: #2 You may need to consider one of the other alternative d(s): 0,11,13,30,197,447,449,491,569 WARNING @ Tue, 30 Jun 2020 01:30:31: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:30:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:30:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:30:34: 22000000 INFO @ Tue, 30 Jun 2020 01:30:37: 17000000 INFO @ Tue, 30 Jun 2020 01:30:40: 23000000 INFO @ Tue, 30 Jun 2020 01:30:44: 18000000 INFO @ Tue, 30 Jun 2020 01:30:46: 24000000 INFO @ Tue, 30 Jun 2020 01:30:50: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:30:53: 25000000 INFO @ Tue, 30 Jun 2020 01:30:56: 20000000 INFO @ Tue, 30 Jun 2020 01:30:58: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:30:58: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:30:58: #1 total tags in treatment: 25906904 INFO @ Tue, 30 Jun 2020 01:30:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:30:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:30:59: #1 tags after filtering in treatment: 25906904 INFO @ Tue, 30 Jun 2020 01:30:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:30:59: #1 finished! INFO @ Tue, 30 Jun 2020 01:30:59: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:30:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:31:01: #2 number of paired peaks: 150 WARNING @ Tue, 30 Jun 2020 01:31:01: Fewer paired peaks (150) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 150 pairs to build model! INFO @ Tue, 30 Jun 2020 01:31:01: start model_add_line... INFO @ Tue, 30 Jun 2020 01:31:01: start X-correlation... INFO @ Tue, 30 Jun 2020 01:31:01: end of X-cor INFO @ Tue, 30 Jun 2020 01:31:01: #2 finished! INFO @ Tue, 30 Jun 2020 01:31:01: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:31:01: #2 alternative fragment length(s) may be 0,11,13,30,197,447,449,491,569 bps INFO @ Tue, 30 Jun 2020 01:31:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.10_model.r WARNING @ Tue, 30 Jun 2020 01:31:01: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:31:01: #2 You may need to consider one of the other alternative d(s): 0,11,13,30,197,447,449,491,569 WARNING @ Tue, 30 Jun 2020 01:31:01: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:31:01: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:31:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:31:03: 21000000 INFO @ Tue, 30 Jun 2020 01:31:09: 22000000 INFO @ Tue, 30 Jun 2020 01:31:15: 23000000 INFO @ Tue, 30 Jun 2020 01:31:22: 24000000 INFO @ Tue, 30 Jun 2020 01:31:28: 25000000 INFO @ Tue, 30 Jun 2020 01:31:34: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:31:34: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:31:34: #1 total tags in treatment: 25906904 INFO @ Tue, 30 Jun 2020 01:31:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:31:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:31:34: #1 tags after filtering in treatment: 25906904 INFO @ Tue, 30 Jun 2020 01:31:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:31:34: #1 finished! INFO @ Tue, 30 Jun 2020 01:31:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:31:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:31:36: #2 number of paired peaks: 150 WARNING @ Tue, 30 Jun 2020 01:31:36: Fewer paired peaks (150) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 150 pairs to build model! INFO @ Tue, 30 Jun 2020 01:31:36: start model_add_line... INFO @ Tue, 30 Jun 2020 01:31:36: start X-correlation... INFO @ Tue, 30 Jun 2020 01:31:36: end of X-cor INFO @ Tue, 30 Jun 2020 01:31:36: #2 finished! INFO @ Tue, 30 Jun 2020 01:31:36: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:31:36: #2 alternative fragment length(s) may be 0,11,13,30,197,447,449,491,569 bps INFO @ Tue, 30 Jun 2020 01:31:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX494833/SRX494833.20_model.r WARNING @ Tue, 30 Jun 2020 01:31:36: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:31:36: #2 You may need to consider one of the other alternative d(s): 0,11,13,30,197,447,449,491,569 WARNING @ Tue, 30 Jun 2020 01:31:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:31:36: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:31:36: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at150/job_scripts/6529106: line 293: 112645 Terminated MACS $i /var/spool/uge/at150/job_scripts/6529106: line 293: 113158 Terminated MACS $i /var/spool/uge/at150/job_scripts/6529106: line 293: 124685 Terminated MACS $i ls: cannot access SRX494833.05.bed: No such file or directory mv: cannot stat ‘SRX494833.05.bed’: No such file or directory mv: cannot stat ‘SRX494833.05.bb’: No such file or directory ls: cannot access SRX494833.10.bed: No such file or directory mv: cannot stat ‘SRX494833.10.bed’: No such file or directory mv: cannot stat ‘SRX494833.10.bb’: No such file or directory ls: cannot access SRX494833.20.bed: No such file or directory mv: cannot stat ‘SRX494833.20.bed’: No such file or directory mv: cannot stat ‘SRX494833.20.bb’: No such file or directory