Job ID = 6529098 SRX = SRX2737088 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: 00:07:32 34451664 reads; of these: 34451664 (100.00%) were unpaired; of these: 1616890 (4.69%) aligned 0 times 28143247 (81.69%) aligned exactly 1 time 4691527 (13.62%) aligned >1 times 95.31% overall alignment rate Time searching: 00:07:32 Overall time: 00:07:32 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] 7211876 / 32834774 = 0.2196 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 01:28:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.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 01:28:58: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:28:58: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:29:04: 1000000 INFO @ Tue, 30 Jun 2020 01:29:10: 2000000 INFO @ Tue, 30 Jun 2020 01:29:16: 3000000 INFO @ Tue, 30 Jun 2020 01:29:22: 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 01:29:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.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 01:29:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:29:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:29:29: 5000000 INFO @ Tue, 30 Jun 2020 01:29:35: 1000000 INFO @ Tue, 30 Jun 2020 01:29:35: 6000000 INFO @ Tue, 30 Jun 2020 01:29:42: 2000000 INFO @ Tue, 30 Jun 2020 01:29:42: 7000000 INFO @ Tue, 30 Jun 2020 01:29:49: 3000000 INFO @ Tue, 30 Jun 2020 01:29:49: 8000000 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 01:29:56: 9000000 INFO @ Tue, 30 Jun 2020 01:29:56: 4000000 INFO @ Tue, 30 Jun 2020 01:29:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.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 01:29:58: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:29:58: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:30:03: 10000000 INFO @ Tue, 30 Jun 2020 01:30:04: 5000000 INFO @ Tue, 30 Jun 2020 01:30:06: 1000000 INFO @ Tue, 30 Jun 2020 01:30:11: 11000000 INFO @ Tue, 30 Jun 2020 01:30:11: 6000000 INFO @ Tue, 30 Jun 2020 01:30:15: 2000000 INFO @ Tue, 30 Jun 2020 01:30:19: 12000000 INFO @ Tue, 30 Jun 2020 01:30:19: 7000000 INFO @ Tue, 30 Jun 2020 01:30:23: 3000000 INFO @ Tue, 30 Jun 2020 01:30:26: 13000000 INFO @ Tue, 30 Jun 2020 01:30:27: 8000000 INFO @ Tue, 30 Jun 2020 01:30:32: 4000000 INFO @ Tue, 30 Jun 2020 01:30:34: 14000000 INFO @ Tue, 30 Jun 2020 01:30:34: 9000000 INFO @ Tue, 30 Jun 2020 01:30:41: 5000000 INFO @ Tue, 30 Jun 2020 01:30:41: 15000000 INFO @ Tue, 30 Jun 2020 01:30:42: 10000000 INFO @ Tue, 30 Jun 2020 01:30:49: 16000000 INFO @ Tue, 30 Jun 2020 01:30:49: 6000000 INFO @ Tue, 30 Jun 2020 01:30:50: 11000000 INFO @ Tue, 30 Jun 2020 01:30:57: 17000000 INFO @ Tue, 30 Jun 2020 01:30:57: 12000000 INFO @ Tue, 30 Jun 2020 01:30:58: 7000000 INFO @ Tue, 30 Jun 2020 01:31:04: 18000000 INFO @ Tue, 30 Jun 2020 01:31:05: 13000000 INFO @ Tue, 30 Jun 2020 01:31:06: 8000000 INFO @ Tue, 30 Jun 2020 01:31:12: 19000000 INFO @ Tue, 30 Jun 2020 01:31:13: 14000000 INFO @ Tue, 30 Jun 2020 01:31:14: 9000000 INFO @ Tue, 30 Jun 2020 01:31:20: 20000000 INFO @ Tue, 30 Jun 2020 01:31:20: 15000000 INFO @ Tue, 30 Jun 2020 01:31:23: 10000000 INFO @ Tue, 30 Jun 2020 01:31:28: 21000000 INFO @ Tue, 30 Jun 2020 01:31:28: 16000000 INFO @ Tue, 30 Jun 2020 01:31:31: 11000000 INFO @ Tue, 30 Jun 2020 01:31:35: 22000000 INFO @ Tue, 30 Jun 2020 01:31:36: 17000000 INFO @ Tue, 30 Jun 2020 01:31:39: 12000000 INFO @ Tue, 30 Jun 2020 01:31:43: 23000000 INFO @ Tue, 30 Jun 2020 01:31:43: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:31:48: 13000000 INFO @ Tue, 30 Jun 2020 01:31:51: 24000000 INFO @ Tue, 30 Jun 2020 01:31:51: 19000000 INFO @ Tue, 30 Jun 2020 01:31:56: 14000000 INFO @ Tue, 30 Jun 2020 01:31:59: 25000000 INFO @ Tue, 30 Jun 2020 01:31:59: 20000000 INFO @ Tue, 30 Jun 2020 01:32:04: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 01:32:04: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 01:32:04: #1 total tags in treatment: 25622898 INFO @ Tue, 30 Jun 2020 01:32:04: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:32:04: #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 01:32:04: #1 tags after filtering in treatment: 25622898 INFO @ Tue, 30 Jun 2020 01:32:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:32:04: #1 finished! INFO @ Tue, 30 Jun 2020 01:32:04: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:32:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:32:04: 15000000 INFO @ Tue, 30 Jun 2020 01:32:06: #2 number of paired peaks: 121 WARNING @ Tue, 30 Jun 2020 01:32:06: Fewer paired peaks (121) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 121 pairs to build model! INFO @ Tue, 30 Jun 2020 01:32:06: start model_add_line... INFO @ Tue, 30 Jun 2020 01:32:06: start X-correlation... INFO @ Tue, 30 Jun 2020 01:32:06: end of X-cor INFO @ Tue, 30 Jun 2020 01:32:06: #2 finished! INFO @ Tue, 30 Jun 2020 01:32:06: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 01:32:06: #2 alternative fragment length(s) may be 0,45,491,508,528,543,588 bps INFO @ Tue, 30 Jun 2020 01:32:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2737088/SRX2737088.05_model.r WARNING @ Tue, 30 Jun 2020 01:32:06: #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 01:32:06: #2 You may need to consider one of the other alternative d(s): 0,45,491,508,528,543,588 WARNING @ Tue, 30 Jun 2020 01:32:06: #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 01:32:06: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:32:06: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:32:07: 21000000 INFO @ Tue, 30 Jun 2020 01:32:13: 16000000 INFO @ Tue, 30 Jun 2020 01:32:14: 22000000 INFO @ Tue, 30 Jun 2020 01:32:21: 17000000 INFO @ Tue, 30 Jun 2020 01:32:22: 23000000 INFO @ Tue, 30 Jun 2020 01:32:29: 18000000 INFO @ Tue, 30 Jun 2020 01:32:30: 24000000 INFO @ Tue, 30 Jun 2020 01:32:37: 19000000 INFO @ Tue, 30 Jun 2020 01:32:37: 25000000 INFO @ Tue, 30 Jun 2020 01:32:42: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 01:32:42: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 01:32:42: #1 total tags in treatment: 25622898 INFO @ Tue, 30 Jun 2020 01:32:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:32:42: #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 01:32:42: #1 tags after filtering in treatment: 25622898 INFO @ Tue, 30 Jun 2020 01:32:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:32:42: #1 finished! INFO @ Tue, 30 Jun 2020 01:32:42: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:32:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:32:44: #2 number of paired peaks: 121 WARNING @ Tue, 30 Jun 2020 01:32:44: Fewer paired peaks (121) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 121 pairs to build model! INFO @ Tue, 30 Jun 2020 01:32:44: start model_add_line... BigWig に変換しました。 /var/spool/uge/at150/job_scripts/6529098: line 293: 4798 Terminated MACS $i /var/spool/uge/at150/job_scripts/6529098: line 293: 23202 Terminated MACS $i /var/spool/uge/at150/job_scripts/6529098: line 293: 42965 Terminated MACS $i ls: cannot access SRX2737088.05.bed: No such file or directory mv: cannot stat ‘SRX2737088.05.bed’: No such file or directory mv: cannot stat ‘SRX2737088.05.bb’: No such file or directory ls: cannot access SRX2737088.10.bed: No such file or directory mv: cannot stat ‘SRX2737088.10.bed’: No such file or directory mv: cannot stat ‘SRX2737088.10.bb’: No such file or directory ls: cannot access SRX2737088.20.bed: No such file or directory mv: cannot stat ‘SRX2737088.20.bed’: No such file or directory mv: cannot stat ‘SRX2737088.20.bb’: No such file or directory