Job ID = 6368795 SRX = SRX5709761 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-16T00:38:49 prefetch.2.10.7: 1) Downloading 'SRR8928711'... 2020-06-16T00:38:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:41:21 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:41:21 prefetch.2.10.7: 1) 'SRR8928711' was downloaded successfully 2020-06-16T00:41:21 prefetch.2.10.7: 'SRR8928711' has 0 unresolved dependencies Read 31787323 spots for SRR8928711/SRR8928711.sra Written 31787323 spots for SRR8928711/SRR8928711.sra 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: 00:07:14 31787323 reads; of these: 31787323 (100.00%) were unpaired; of these: 1590881 (5.00%) aligned 0 times 25126196 (79.04%) aligned exactly 1 time 5070246 (15.95%) aligned >1 times 95.00% overall alignment rate Time searching: 00:07:14 Overall time: 00:07:14 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] 6524762 / 30196442 = 0.2161 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, 16 Jun 2020 09:56:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.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, 16 Jun 2020 09:56:27: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:56:27: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:56:33: 1000000 INFO @ Tue, 16 Jun 2020 09:56:38: 2000000 INFO @ Tue, 16 Jun 2020 09:56:44: 3000000 INFO @ Tue, 16 Jun 2020 09:56:49: 4000000 INFO @ Tue, 16 Jun 2020 09:56:55: 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 @ Tue, 16 Jun 2020 09:56:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.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, 16 Jun 2020 09:56:57: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:56:57: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:57:01: 6000000 INFO @ Tue, 16 Jun 2020 09:57:05: 1000000 INFO @ Tue, 16 Jun 2020 09:57:08: 7000000 INFO @ Tue, 16 Jun 2020 09:57:12: 2000000 INFO @ Tue, 16 Jun 2020 09:57:15: 8000000 INFO @ Tue, 16 Jun 2020 09:57:20: 3000000 INFO @ Tue, 16 Jun 2020 09:57:22: 9000000 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, 16 Jun 2020 09:57:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.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, 16 Jun 2020 09:57:27: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:57:27: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:57:28: 4000000 INFO @ Tue, 16 Jun 2020 09:57:29: 10000000 INFO @ Tue, 16 Jun 2020 09:57:34: 1000000 INFO @ Tue, 16 Jun 2020 09:57:36: 5000000 INFO @ Tue, 16 Jun 2020 09:57:37: 11000000 INFO @ Tue, 16 Jun 2020 09:57:41: 2000000 INFO @ Tue, 16 Jun 2020 09:57:44: 12000000 INFO @ Tue, 16 Jun 2020 09:57:44: 6000000 INFO @ Tue, 16 Jun 2020 09:57:48: 3000000 INFO @ Tue, 16 Jun 2020 09:57:51: 13000000 INFO @ Tue, 16 Jun 2020 09:57:52: 7000000 INFO @ Tue, 16 Jun 2020 09:57:55: 4000000 INFO @ Tue, 16 Jun 2020 09:57:58: 14000000 INFO @ Tue, 16 Jun 2020 09:58:00: 8000000 INFO @ Tue, 16 Jun 2020 09:58:02: 5000000 INFO @ Tue, 16 Jun 2020 09:58:05: 15000000 INFO @ Tue, 16 Jun 2020 09:58:07: 9000000 INFO @ Tue, 16 Jun 2020 09:58:09: 6000000 INFO @ Tue, 16 Jun 2020 09:58:12: 16000000 INFO @ Tue, 16 Jun 2020 09:58:15: 10000000 INFO @ Tue, 16 Jun 2020 09:58:16: 7000000 INFO @ Tue, 16 Jun 2020 09:58:19: 17000000 INFO @ Tue, 16 Jun 2020 09:58:23: 11000000 INFO @ Tue, 16 Jun 2020 09:58:24: 8000000 INFO @ Tue, 16 Jun 2020 09:58:26: 18000000 INFO @ Tue, 16 Jun 2020 09:58:31: 9000000 INFO @ Tue, 16 Jun 2020 09:58:31: 12000000 INFO @ Tue, 16 Jun 2020 09:58:33: 19000000 INFO @ Tue, 16 Jun 2020 09:58:38: 10000000 INFO @ Tue, 16 Jun 2020 09:58:39: 13000000 INFO @ Tue, 16 Jun 2020 09:58:40: 20000000 INFO @ Tue, 16 Jun 2020 09:58:45: 11000000 INFO @ Tue, 16 Jun 2020 09:58:47: 21000000 INFO @ Tue, 16 Jun 2020 09:58:47: 14000000 INFO @ Tue, 16 Jun 2020 09:58:52: 12000000 INFO @ Tue, 16 Jun 2020 09:58:54: 22000000 INFO @ Tue, 16 Jun 2020 09:58:55: 15000000 INFO @ Tue, 16 Jun 2020 09:58:59: 13000000 INFO @ Tue, 16 Jun 2020 09:59:01: 23000000 INFO @ Tue, 16 Jun 2020 09:59:03: 16000000 INFO @ Tue, 16 Jun 2020 09:59:06: 14000000 INFO @ Tue, 16 Jun 2020 09:59:06: #1 tag size is determined as 49 bps INFO @ Tue, 16 Jun 2020 09:59:06: #1 tag size = 49 INFO @ Tue, 16 Jun 2020 09:59:06: #1 total tags in treatment: 23671680 INFO @ Tue, 16 Jun 2020 09:59:06: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:59:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:59:07: #1 tags after filtering in treatment: 23671680 INFO @ Tue, 16 Jun 2020 09:59:07: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:59:07: #1 finished! INFO @ Tue, 16 Jun 2020 09:59:07: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:59:07: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:59:08: #2 number of paired peaks: 192 WARNING @ Tue, 16 Jun 2020 09:59:08: Fewer paired peaks (192) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 192 pairs to build model! INFO @ Tue, 16 Jun 2020 09:59:08: start model_add_line... INFO @ Tue, 16 Jun 2020 09:59:08: start X-correlation... INFO @ Tue, 16 Jun 2020 09:59:08: end of X-cor INFO @ Tue, 16 Jun 2020 09:59:08: #2 finished! INFO @ Tue, 16 Jun 2020 09:59:08: #2 predicted fragment length is 0 bps INFO @ Tue, 16 Jun 2020 09:59:08: #2 alternative fragment length(s) may be 0,12,45,513,526,554,594 bps INFO @ Tue, 16 Jun 2020 09:59:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX5709761/SRX5709761.05_model.r WARNING @ Tue, 16 Jun 2020 09:59:08: #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, 16 Jun 2020 09:59:08: #2 You may need to consider one of the other alternative d(s): 0,12,45,513,526,554,594 WARNING @ Tue, 16 Jun 2020 09:59:08: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 09:59:08: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:59:08: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:59:11: 17000000 INFO @ Tue, 16 Jun 2020 09:59:13: 15000000 INFO @ Tue, 16 Jun 2020 09:59:19: 18000000 INFO @ Tue, 16 Jun 2020 09:59:20: 16000000 INFO @ Tue, 16 Jun 2020 09:59:27: 19000000 INFO @ Tue, 16 Jun 2020 09:59:27: 17000000 INFO @ Tue, 16 Jun 2020 09:59:34: 18000000 INFO @ Tue, 16 Jun 2020 09:59:35: 20000000 INFO @ Tue, 16 Jun 2020 09:59:42: 19000000 INFO @ Tue, 16 Jun 2020 09:59:43: 21000000 INFO @ Tue, 16 Jun 2020 09:59:49: 20000000 INFO @ Tue, 16 Jun 2020 09:59:51: 22000000 INFO @ Tue, 16 Jun 2020 09:59:56: 21000000 BigWig に変換しました。 /var/spool/uge/at153/job_scripts/6368795: line 271: 68030 Terminated MACS $i /var/spool/uge/at153/job_scripts/6368795: line 271: 68198 Terminated MACS $i /var/spool/uge/at153/job_scripts/6368795: line 271: 68440 Terminated MACS $i ls: cannot access SRX5709761.05.bed: No such file or directory mv: cannot stat ‘SRX5709761.05.bed’: No such file or directory mv: cannot stat ‘SRX5709761.05.bb’: No such file or directory ls: cannot access SRX5709761.10.bed: No such file or directory mv: cannot stat ‘SRX5709761.10.bed’: No such file or directory mv: cannot stat ‘SRX5709761.10.bb’: No such file or directory ls: cannot access SRX5709761.20.bed: No such file or directory mv: cannot stat ‘SRX5709761.20.bed’: No such file or directory mv: cannot stat ‘SRX5709761.20.bb’: No such file or directory