Job ID = 6529099 SRX = SRX2973385 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: 00:17:12 45844906 reads; of these: 45844906 (100.00%) were unpaired; of these: 5562587 (12.13%) aligned 0 times 33530834 (73.14%) aligned exactly 1 time 6751485 (14.73%) aligned >1 times 87.87% overall alignment rate Time searching: 00:17:12 Overall time: 00:17:12 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 20 files... [bam_rmdupse_core] 10513455 / 40282319 = 0.2610 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 01:52:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.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 01:52:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:52:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:52:17: 1000000 INFO @ Tue, 30 Jun 2020 01:52:25: 2000000 INFO @ Tue, 30 Jun 2020 01:52:32: 3000000 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 01:52:39: 4000000 INFO @ Tue, 30 Jun 2020 01:52:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.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 01:52:39: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:52:39: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:52:49: 5000000 INFO @ Tue, 30 Jun 2020 01:52:50: 1000000 INFO @ Tue, 30 Jun 2020 01:52:58: 6000000 INFO @ Tue, 30 Jun 2020 01:53:00: 2000000 INFO @ Tue, 30 Jun 2020 01:53:07: 7000000 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 01:53:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.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 01:53:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:53:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:53:10: 3000000 INFO @ Tue, 30 Jun 2020 01:53:16: 8000000 INFO @ Tue, 30 Jun 2020 01:53:19: 1000000 INFO @ Tue, 30 Jun 2020 01:53:21: 4000000 INFO @ Tue, 30 Jun 2020 01:53:26: 9000000 INFO @ Tue, 30 Jun 2020 01:53:28: 2000000 INFO @ Tue, 30 Jun 2020 01:53:31: 5000000 INFO @ Tue, 30 Jun 2020 01:53:35: 10000000 INFO @ Tue, 30 Jun 2020 01:53:37: 3000000 INFO @ Tue, 30 Jun 2020 01:53:41: 6000000 INFO @ Tue, 30 Jun 2020 01:53:44: 11000000 INFO @ Tue, 30 Jun 2020 01:53:46: 4000000 INFO @ Tue, 30 Jun 2020 01:53:50: 7000000 INFO @ Tue, 30 Jun 2020 01:53:53: 12000000 INFO @ Tue, 30 Jun 2020 01:53:56: 5000000 INFO @ Tue, 30 Jun 2020 01:54:00: 8000000 INFO @ Tue, 30 Jun 2020 01:54:02: 13000000 INFO @ Tue, 30 Jun 2020 01:54:05: 6000000 INFO @ Tue, 30 Jun 2020 01:54:10: 9000000 INFO @ Tue, 30 Jun 2020 01:54:11: 14000000 INFO @ Tue, 30 Jun 2020 01:54:14: 7000000 INFO @ Tue, 30 Jun 2020 01:54:20: 10000000 INFO @ Tue, 30 Jun 2020 01:54:20: 15000000 INFO @ Tue, 30 Jun 2020 01:54:23: 8000000 INFO @ Tue, 30 Jun 2020 01:54:29: 11000000 INFO @ Tue, 30 Jun 2020 01:54:29: 16000000 INFO @ Tue, 30 Jun 2020 01:54:32: 9000000 INFO @ Tue, 30 Jun 2020 01:54:39: 17000000 INFO @ Tue, 30 Jun 2020 01:54:39: 12000000 INFO @ Tue, 30 Jun 2020 01:54:42: 10000000 INFO @ Tue, 30 Jun 2020 01:54:48: 18000000 INFO @ Tue, 30 Jun 2020 01:54:49: 13000000 INFO @ Tue, 30 Jun 2020 01:54:51: 11000000 INFO @ Tue, 30 Jun 2020 01:54:57: 19000000 INFO @ Tue, 30 Jun 2020 01:54:59: 14000000 INFO @ Tue, 30 Jun 2020 01:55:00: 12000000 INFO @ Tue, 30 Jun 2020 01:55:06: 20000000 INFO @ Tue, 30 Jun 2020 01:55:09: 13000000 INFO @ Tue, 30 Jun 2020 01:55:09: 15000000 INFO @ Tue, 30 Jun 2020 01:55:16: 21000000 INFO @ Tue, 30 Jun 2020 01:55:19: 14000000 INFO @ Tue, 30 Jun 2020 01:55:20: 16000000 INFO @ Tue, 30 Jun 2020 01:55:25: 22000000 INFO @ Tue, 30 Jun 2020 01:55:28: 15000000 INFO @ Tue, 30 Jun 2020 01:55:30: 17000000 INFO @ Tue, 30 Jun 2020 01:55:35: 23000000 INFO @ Tue, 30 Jun 2020 01:55:38: 16000000 INFO @ Tue, 30 Jun 2020 01:55:40: 18000000 INFO @ Tue, 30 Jun 2020 01:55:44: 24000000 INFO @ Tue, 30 Jun 2020 01:55:47: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:55:50: 19000000 INFO @ Tue, 30 Jun 2020 01:55:54: 25000000 INFO @ Tue, 30 Jun 2020 01:55:56: 18000000 INFO @ Tue, 30 Jun 2020 01:56:01: 20000000 INFO @ Tue, 30 Jun 2020 01:56:03: 26000000 INFO @ Tue, 30 Jun 2020 01:56:06: 19000000 INFO @ Tue, 30 Jun 2020 01:56:11: 21000000 INFO @ Tue, 30 Jun 2020 01:56:12: 27000000 INFO @ Tue, 30 Jun 2020 01:56:15: 20000000 INFO @ Tue, 30 Jun 2020 01:56:21: 28000000 INFO @ Tue, 30 Jun 2020 01:56:21: 22000000 INFO @ Tue, 30 Jun 2020 01:56:24: 21000000 INFO @ Tue, 30 Jun 2020 01:56:31: 29000000 INFO @ Tue, 30 Jun 2020 01:56:32: 23000000 INFO @ Tue, 30 Jun 2020 01:56:34: 22000000 INFO @ Tue, 30 Jun 2020 01:56:38: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 01:56:38: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 01:56:38: #1 total tags in treatment: 29768864 INFO @ Tue, 30 Jun 2020 01:56:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:56:38: #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 01:56:39: #1 tags after filtering in treatment: 29768864 INFO @ Tue, 30 Jun 2020 01:56:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:56:39: #1 finished! INFO @ Tue, 30 Jun 2020 01:56:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:56:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:56:41: #2 number of paired peaks: 100 WARNING @ Tue, 30 Jun 2020 01:56:41: Fewer paired peaks (100) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 100 pairs to build model! INFO @ Tue, 30 Jun 2020 01:56:41: start model_add_line... INFO @ Tue, 30 Jun 2020 01:56:41: start X-correlation... INFO @ Tue, 30 Jun 2020 01:56:41: end of X-cor INFO @ Tue, 30 Jun 2020 01:56:41: #2 finished! INFO @ Tue, 30 Jun 2020 01:56:41: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:56:41: #2 alternative fragment length(s) may be 0,51,79,325,364,379,400,529,551 bps INFO @ Tue, 30 Jun 2020 01:56:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2973385/SRX2973385.05_model.r WARNING @ Tue, 30 Jun 2020 01:56:41: #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 01:56:41: #2 You may need to consider one of the other alternative d(s): 0,51,79,325,364,379,400,529,551 WARNING @ Tue, 30 Jun 2020 01:56:41: #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 01:56:41: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:56:41: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:56:42: 24000000 INFO @ Tue, 30 Jun 2020 01:56:43: 23000000 INFO @ Tue, 30 Jun 2020 01:56:52: 24000000 INFO @ Tue, 30 Jun 2020 01:56:53: 25000000 BigWig に変換しました。 /var/spool/uge/at157/job_scripts/6529099: line 293: 109172 Terminated MACS $i /var/spool/uge/at157/job_scripts/6529099: line 293: 119150 Terminated MACS $i /var/spool/uge/at157/job_scripts/6529099: line 293: 893 Terminated MACS $i ls: cannot access SRX2973385.05.bed: No such file or directory mv: cannot stat ‘SRX2973385.05.bed’: No such file or directory mv: cannot stat ‘SRX2973385.05.bb’: No such file or directory ls: cannot access SRX2973385.10.bed: No such file or directory mv: cannot stat ‘SRX2973385.10.bed’: No such file or directory mv: cannot stat ‘SRX2973385.10.bb’: No such file or directory ls: cannot access SRX2973385.20.bed: No such file or directory mv: cannot stat ‘SRX2973385.20.bed’: No such file or directory mv: cannot stat ‘SRX2973385.20.bb’: No such file or directory