Job ID = 6529974 SRX = SRX5717025 Genome = dm6 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: 00:00:01 Multiseed full-index search: 00:09:19 27306349 reads; of these: 27306349 (100.00%) were unpaired; of these: 3235192 (11.85%) aligned 0 times 10114823 (37.04%) aligned exactly 1 time 13956334 (51.11%) aligned >1 times 88.15% overall alignment rate Time searching: 00:09:20 Overall time: 00:09:20 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 9625020 / 24071157 = 0.3999 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 03:17:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.bam'] # control file = None # effective genome size = 1.20e+08 # 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 03:17:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:17:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:18:03: 1000000 INFO @ Tue, 30 Jun 2020 03:18:10: 2000000 INFO @ Tue, 30 Jun 2020 03:18:16: 3000000 INFO @ Tue, 30 Jun 2020 03:18:23: 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 03:18:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.bam'] # control file = None # effective genome size = 1.20e+08 # 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 03:18:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:18:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:18:30: 5000000 INFO @ Tue, 30 Jun 2020 03:18:33: 1000000 INFO @ Tue, 30 Jun 2020 03:18:37: 6000000 INFO @ Tue, 30 Jun 2020 03:18:40: 2000000 INFO @ Tue, 30 Jun 2020 03:18:45: 7000000 INFO @ Tue, 30 Jun 2020 03:18:47: 3000000 INFO @ Tue, 30 Jun 2020 03:18:52: 8000000 INFO @ Tue, 30 Jun 2020 03:18:54: 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 03:18:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.bam'] # control file = None # effective genome size = 1.20e+08 # 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 03:18:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:18:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:18:59: 9000000 INFO @ Tue, 30 Jun 2020 03:19:01: 5000000 INFO @ Tue, 30 Jun 2020 03:19:03: 1000000 INFO @ Tue, 30 Jun 2020 03:19:06: 10000000 INFO @ Tue, 30 Jun 2020 03:19:08: 6000000 INFO @ Tue, 30 Jun 2020 03:19:10: 2000000 INFO @ Tue, 30 Jun 2020 03:19:13: 11000000 INFO @ Tue, 30 Jun 2020 03:19:15: 7000000 INFO @ Tue, 30 Jun 2020 03:19:17: 3000000 INFO @ Tue, 30 Jun 2020 03:19:21: 12000000 INFO @ Tue, 30 Jun 2020 03:19:21: 8000000 INFO @ Tue, 30 Jun 2020 03:19:23: 4000000 INFO @ Tue, 30 Jun 2020 03:19:28: 9000000 INFO @ Tue, 30 Jun 2020 03:19:28: 13000000 INFO @ Tue, 30 Jun 2020 03:19:30: 5000000 INFO @ Tue, 30 Jun 2020 03:19:35: 10000000 INFO @ Tue, 30 Jun 2020 03:19:36: 14000000 INFO @ Tue, 30 Jun 2020 03:19:37: 6000000 INFO @ Tue, 30 Jun 2020 03:19:39: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:19:39: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:19:39: #1 total tags in treatment: 14446137 INFO @ Tue, 30 Jun 2020 03:19:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:19:39: #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 03:19:39: #1 tags after filtering in treatment: 14446094 INFO @ Tue, 30 Jun 2020 03:19:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:19:39: #1 finished! INFO @ Tue, 30 Jun 2020 03:19:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:19:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:19:41: #2 number of paired peaks: 1039 INFO @ Tue, 30 Jun 2020 03:19:41: start model_add_line... INFO @ Tue, 30 Jun 2020 03:19:41: start X-correlation... INFO @ Tue, 30 Jun 2020 03:19:41: end of X-cor INFO @ Tue, 30 Jun 2020 03:19:41: #2 finished! INFO @ Tue, 30 Jun 2020 03:19:41: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:19:41: #2 alternative fragment length(s) may be 0,25,53 bps INFO @ Tue, 30 Jun 2020 03:19:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.05_model.r WARNING @ Tue, 30 Jun 2020 03:19:41: #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 03:19:41: #2 You may need to consider one of the other alternative d(s): 0,25,53 WARNING @ Tue, 30 Jun 2020 03:19:41: #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 03:19:41: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:19:41: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:19:42: 11000000 INFO @ Tue, 30 Jun 2020 03:19:44: 7000000 INFO @ Tue, 30 Jun 2020 03:19:49: 12000000 INFO @ Tue, 30 Jun 2020 03:19:50: 8000000 INFO @ Tue, 30 Jun 2020 03:19:56: 13000000 INFO @ Tue, 30 Jun 2020 03:19:56: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:20:02: 14000000 INFO @ Tue, 30 Jun 2020 03:20:03: 10000000 INFO @ Tue, 30 Jun 2020 03:20:05: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:20:05: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:20:05: #1 total tags in treatment: 14446137 INFO @ Tue, 30 Jun 2020 03:20:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:20:05: #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 03:20:06: #1 tags after filtering in treatment: 14446094 INFO @ Tue, 30 Jun 2020 03:20:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:20:06: #1 finished! INFO @ Tue, 30 Jun 2020 03:20:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:20:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:20:07: #2 number of paired peaks: 1039 INFO @ Tue, 30 Jun 2020 03:20:07: start model_add_line... INFO @ Tue, 30 Jun 2020 03:20:07: start X-correlation... INFO @ Tue, 30 Jun 2020 03:20:07: end of X-cor INFO @ Tue, 30 Jun 2020 03:20:07: #2 finished! INFO @ Tue, 30 Jun 2020 03:20:07: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:20:07: #2 alternative fragment length(s) may be 0,25,53 bps INFO @ Tue, 30 Jun 2020 03:20:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.10_model.r WARNING @ Tue, 30 Jun 2020 03:20:07: #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 03:20:07: #2 You may need to consider one of the other alternative d(s): 0,25,53 WARNING @ Tue, 30 Jun 2020 03:20:07: #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 03:20:07: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:20:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:20:09: 11000000 INFO @ Tue, 30 Jun 2020 03:20:15: 12000000 INFO @ Tue, 30 Jun 2020 03:20:21: 13000000 INFO @ Tue, 30 Jun 2020 03:20:27: 14000000 INFO @ Tue, 30 Jun 2020 03:20:29: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:20:29: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:20:29: #1 total tags in treatment: 14446137 INFO @ Tue, 30 Jun 2020 03:20:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:20:29: #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 03:20:30: #1 tags after filtering in treatment: 14446094 INFO @ Tue, 30 Jun 2020 03:20:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:20:30: #1 finished! INFO @ Tue, 30 Jun 2020 03:20:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:20:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:20:31: #2 number of paired peaks: 1039 INFO @ Tue, 30 Jun 2020 03:20:31: start model_add_line... INFO @ Tue, 30 Jun 2020 03:20:31: start X-correlation... INFO @ Tue, 30 Jun 2020 03:20:31: end of X-cor INFO @ Tue, 30 Jun 2020 03:20:31: #2 finished! INFO @ Tue, 30 Jun 2020 03:20:31: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:20:31: #2 alternative fragment length(s) may be 0,25,53 bps INFO @ Tue, 30 Jun 2020 03:20:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717025/SRX5717025.20_model.r WARNING @ Tue, 30 Jun 2020 03:20:31: #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 03:20:31: #2 You may need to consider one of the other alternative d(s): 0,25,53 WARNING @ Tue, 30 Jun 2020 03:20:31: #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 03:20:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:20:31: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at157/job_scripts/6529974: line 293: 90878 Terminated MACS $i /var/spool/uge/at157/job_scripts/6529974: line 293: 131018 Terminated MACS $i /var/spool/uge/at157/job_scripts/6529974: line 293: 7499 Terminated MACS $i ls: cannot access SRX5717025.05.bed: No such file or directory mv: cannot stat ‘SRX5717025.05.bed’: No such file or directory mv: cannot stat ‘SRX5717025.05.bb’: No such file or directory ls: cannot access SRX5717025.10.bed: No such file or directory mv: cannot stat ‘SRX5717025.10.bed’: No such file or directory mv: cannot stat ‘SRX5717025.10.bb’: No such file or directory ls: cannot access SRX5717025.20.bed: No such file or directory mv: cannot stat ‘SRX5717025.20.bed’: No such file or directory mv: cannot stat ‘SRX5717025.20.bb’: No such file or directory