Job ID = 6368811 SRX = SRX5985665 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-16T00:39:35 prefetch.2.10.7: 1) Downloading 'SRR9214970'... 2020-06-16T00:39:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:46:26 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:46:26 prefetch.2.10.7: 1) 'SRR9214970' was downloaded successfully Read 30438687 spots for SRR9214970/SRR9214970.sra Written 30438687 spots for SRR9214970/SRR9214970.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: 00:10:06 30438687 reads; of these: 30438687 (100.00%) were unpaired; of these: 491249 (1.61%) aligned 0 times 25159459 (82.66%) aligned exactly 1 time 4787979 (15.73%) aligned >1 times 98.39% overall alignment rate Time searching: 00:10:06 Overall time: 00:10:06 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] 3350455 / 29947438 = 0.1119 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 10:09:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.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 10:09:05: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:09:05: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:09:11: 1000000 INFO @ Tue, 16 Jun 2020 10:09:17: 2000000 INFO @ Tue, 16 Jun 2020 10:09:24: 3000000 INFO @ Tue, 16 Jun 2020 10:09:30: 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, 16 Jun 2020 10:09:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.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 10:09:35: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:09:35: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:09:36: 5000000 INFO @ Tue, 16 Jun 2020 10:09:43: 6000000 INFO @ Tue, 16 Jun 2020 10:09:44: 1000000 INFO @ Tue, 16 Jun 2020 10:09:51: 7000000 INFO @ Tue, 16 Jun 2020 10:09:52: 2000000 INFO @ Tue, 16 Jun 2020 10:09:58: 8000000 INFO @ Tue, 16 Jun 2020 10:10:00: 3000000 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 10:10:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.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 10:10:05: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:10:05: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:10:06: 9000000 INFO @ Tue, 16 Jun 2020 10:10:09: 4000000 INFO @ Tue, 16 Jun 2020 10:10:13: 10000000 INFO @ Tue, 16 Jun 2020 10:10:14: 1000000 INFO @ Tue, 16 Jun 2020 10:10:17: 5000000 INFO @ Tue, 16 Jun 2020 10:10:21: 11000000 INFO @ Tue, 16 Jun 2020 10:10:23: 2000000 INFO @ Tue, 16 Jun 2020 10:10:26: 6000000 INFO @ Tue, 16 Jun 2020 10:10:28: 12000000 INFO @ Tue, 16 Jun 2020 10:10:32: 3000000 INFO @ Tue, 16 Jun 2020 10:10:34: 7000000 INFO @ Tue, 16 Jun 2020 10:10:36: 13000000 INFO @ Tue, 16 Jun 2020 10:10:41: 4000000 INFO @ Tue, 16 Jun 2020 10:10:43: 8000000 INFO @ Tue, 16 Jun 2020 10:10:44: 14000000 INFO @ Tue, 16 Jun 2020 10:10:50: 5000000 INFO @ Tue, 16 Jun 2020 10:10:51: 15000000 INFO @ Tue, 16 Jun 2020 10:10:51: 9000000 INFO @ Tue, 16 Jun 2020 10:10:59: 16000000 INFO @ Tue, 16 Jun 2020 10:10:59: 6000000 INFO @ Tue, 16 Jun 2020 10:11:00: 10000000 INFO @ Tue, 16 Jun 2020 10:11:06: 17000000 INFO @ Tue, 16 Jun 2020 10:11:09: 11000000 INFO @ Tue, 16 Jun 2020 10:11:09: 7000000 INFO @ Tue, 16 Jun 2020 10:11:14: 18000000 INFO @ Tue, 16 Jun 2020 10:11:17: 12000000 INFO @ Tue, 16 Jun 2020 10:11:19: 8000000 INFO @ Tue, 16 Jun 2020 10:11:22: 19000000 INFO @ Tue, 16 Jun 2020 10:11:26: 13000000 INFO @ Tue, 16 Jun 2020 10:11:28: 9000000 INFO @ Tue, 16 Jun 2020 10:11:29: 20000000 INFO @ Tue, 16 Jun 2020 10:11:34: 14000000 INFO @ Tue, 16 Jun 2020 10:11:37: 21000000 INFO @ Tue, 16 Jun 2020 10:11:38: 10000000 INFO @ Tue, 16 Jun 2020 10:11:43: 15000000 INFO @ Tue, 16 Jun 2020 10:11:44: 22000000 INFO @ Tue, 16 Jun 2020 10:11:47: 11000000 INFO @ Tue, 16 Jun 2020 10:11:52: 16000000 INFO @ Tue, 16 Jun 2020 10:11:52: 23000000 INFO @ Tue, 16 Jun 2020 10:11:56: 12000000 INFO @ Tue, 16 Jun 2020 10:11:59: 24000000 INFO @ Tue, 16 Jun 2020 10:12:00: 17000000 INFO @ Tue, 16 Jun 2020 10:12:05: 13000000 INFO @ Tue, 16 Jun 2020 10:12:07: 25000000 INFO @ Tue, 16 Jun 2020 10:12:09: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 10:12:14: 14000000 INFO @ Tue, 16 Jun 2020 10:12:14: 26000000 INFO @ Tue, 16 Jun 2020 10:12:17: 19000000 INFO @ Tue, 16 Jun 2020 10:12:19: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 10:12:19: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 10:12:19: #1 total tags in treatment: 26596983 INFO @ Tue, 16 Jun 2020 10:12:19: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:12:19: #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 10:12:20: #1 tags after filtering in treatment: 26596983 INFO @ Tue, 16 Jun 2020 10:12:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 10:12:20: #1 finished! INFO @ Tue, 16 Jun 2020 10:12:20: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:12:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:12:21: #2 number of paired peaks: 109 WARNING @ Tue, 16 Jun 2020 10:12:21: Fewer paired peaks (109) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 109 pairs to build model! INFO @ Tue, 16 Jun 2020 10:12:21: start model_add_line... INFO @ Tue, 16 Jun 2020 10:12:21: start X-correlation... INFO @ Tue, 16 Jun 2020 10:12:21: end of X-cor INFO @ Tue, 16 Jun 2020 10:12:21: #2 finished! INFO @ Tue, 16 Jun 2020 10:12:21: #2 predicted fragment length is 0 bps INFO @ Tue, 16 Jun 2020 10:12:21: #2 alternative fragment length(s) may be 0,68,186,408,547 bps INFO @ Tue, 16 Jun 2020 10:12:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX5985665/SRX5985665.05_model.r WARNING @ Tue, 16 Jun 2020 10:12:21: #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 10:12:21: #2 You may need to consider one of the other alternative d(s): 0,68,186,408,547 WARNING @ Tue, 16 Jun 2020 10:12:21: #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 10:12:21: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:12:21: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:12:23: 15000000 INFO @ Tue, 16 Jun 2020 10:12:25: 20000000 INFO @ Tue, 16 Jun 2020 10:12:32: 16000000 INFO @ Tue, 16 Jun 2020 10:12:34: 21000000 INFO @ Tue, 16 Jun 2020 10:12:41: 17000000 INFO @ Tue, 16 Jun 2020 10:12:42: 22000000 INFO @ Tue, 16 Jun 2020 10:12:49: 18000000 INFO @ Tue, 16 Jun 2020 10:12:51: 23000000 INFO @ Tue, 16 Jun 2020 10:12:58: 19000000 INFO @ Tue, 16 Jun 2020 10:12:59: 24000000 INFO @ Tue, 16 Jun 2020 10:13:07: 20000000 INFO @ Tue, 16 Jun 2020 10:13:08: 25000000 BigWig に変換しました。 /var/spool/uge/at146/job_scripts/6368811: line 271: 70871 Terminated MACS $i /var/spool/uge/at146/job_scripts/6368811: line 271: 71537 Terminated MACS $i /var/spool/uge/at146/job_scripts/6368811: line 271: 72479 Terminated MACS $i ls: cannot access SRX5985665.05.bed: No such file or directory mv: cannot stat ‘SRX5985665.05.bed’: No such file or directory mv: cannot stat ‘SRX5985665.05.bb’: No such file or directory ls: cannot access SRX5985665.10.bed: No such file or directory mv: cannot stat ‘SRX5985665.10.bed’: No such file or directory mv: cannot stat ‘SRX5985665.10.bb’: No such file or directory ls: cannot access SRX5985665.20.bed: No such file or directory mv: cannot stat ‘SRX5985665.20.bed’: No such file or directory mv: cannot stat ‘SRX5985665.20.bb’: No such file or directory