Job ID = 6528454 SRX = SRX647916 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:00:28 prefetch.2.10.7: 1) Downloading 'SRR1508952'... 2020-06-29T15:00:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:01:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:01:48 prefetch.2.10.7: 'SRR1508952' is valid 2020-06-29T15:01:48 prefetch.2.10.7: 1) 'SRR1508952' was downloaded successfully 2020-06-29T15:01:49 prefetch.2.10.7: 'SRR1508952' has 0 unresolved dependencies Read 12882872 spots for SRR1508952/SRR1508952.sra Written 12882872 spots for SRR1508952/SRR1508952.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: 00:03:52 12882872 reads; of these: 12882872 (100.00%) were unpaired; of these: 838065 (6.51%) aligned 0 times 9339003 (72.49%) aligned exactly 1 time 2705804 (21.00%) aligned >1 times 93.49% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 823015 / 12044807 = 0.0683 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 00:12:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.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 00:12:59: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:12:59: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:13:05: 1000000 INFO @ Tue, 30 Jun 2020 00:13:11: 2000000 INFO @ Tue, 30 Jun 2020 00:13:16: 3000000 INFO @ Tue, 30 Jun 2020 00:13:22: 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 00:13:28: 5000000 INFO @ Tue, 30 Jun 2020 00:13:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.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 00:13:29: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:13:29: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:13:34: 6000000 INFO @ Tue, 30 Jun 2020 00:13:35: 1000000 INFO @ Tue, 30 Jun 2020 00:13:40: 7000000 INFO @ Tue, 30 Jun 2020 00:13:42: 2000000 INFO @ Tue, 30 Jun 2020 00:13:46: 8000000 INFO @ Tue, 30 Jun 2020 00:13:48: 3000000 INFO @ Tue, 30 Jun 2020 00:13:52: 9000000 INFO @ Tue, 30 Jun 2020 00:13:54: 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 00:13:58: 10000000 INFO @ Tue, 30 Jun 2020 00:13:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.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 00:13:59: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:13:59: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:14:00: 5000000 INFO @ Tue, 30 Jun 2020 00:14:04: 11000000 INFO @ Tue, 30 Jun 2020 00:14:06: 1000000 INFO @ Tue, 30 Jun 2020 00:14:06: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:14:06: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:14:06: #1 total tags in treatment: 11221792 INFO @ Tue, 30 Jun 2020 00:14:06: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:14:06: #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 00:14:06: #1 tags after filtering in treatment: 11221792 INFO @ Tue, 30 Jun 2020 00:14:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:14:06: #1 finished! INFO @ Tue, 30 Jun 2020 00:14:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:14:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:14:06: 6000000 INFO @ Tue, 30 Jun 2020 00:14:07: #2 number of paired peaks: 88 WARNING @ Tue, 30 Jun 2020 00:14:07: Too few paired peaks (88) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:14:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:14:12: 2000000 INFO @ Tue, 30 Jun 2020 00:14:12: 7000000 INFO @ Tue, 30 Jun 2020 00:14:18: 3000000 INFO @ Tue, 30 Jun 2020 00:14:19: 8000000 INFO @ Tue, 30 Jun 2020 00:14:24: 4000000 INFO @ Tue, 30 Jun 2020 00:14:25: 9000000 INFO @ Tue, 30 Jun 2020 00:14:31: 5000000 INFO @ Tue, 30 Jun 2020 00:14:31: 10000000 INFO @ Tue, 30 Jun 2020 00:14:37: 6000000 INFO @ Tue, 30 Jun 2020 00:14:37: 11000000 INFO @ Tue, 30 Jun 2020 00:14:39: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:14:39: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:14:39: #1 total tags in treatment: 11221792 INFO @ Tue, 30 Jun 2020 00:14:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:14:39: #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 00:14:39: #1 tags after filtering in treatment: 11221792 INFO @ Tue, 30 Jun 2020 00:14:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:14:39: #1 finished! INFO @ Tue, 30 Jun 2020 00:14:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:14:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:14:39: #2 number of paired peaks: 88 WARNING @ Tue, 30 Jun 2020 00:14:39: Too few paired peaks (88) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:14:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:14:43: 7000000 INFO @ Tue, 30 Jun 2020 00:14:49: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:14:55: 9000000 INFO @ Tue, 30 Jun 2020 00:15:00: 10000000 INFO @ Tue, 30 Jun 2020 00:15:06: 11000000 INFO @ Tue, 30 Jun 2020 00:15:08: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:15:08: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:15:08: #1 total tags in treatment: 11221792 INFO @ Tue, 30 Jun 2020 00:15:08: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:15:08: #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 00:15:08: #1 tags after filtering in treatment: 11221792 INFO @ Tue, 30 Jun 2020 00:15:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:15:08: #1 finished! INFO @ Tue, 30 Jun 2020 00:15:08: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:15:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:15:08: #2 number of paired peaks: 88 WARNING @ Tue, 30 Jun 2020 00:15:08: Too few paired peaks (88) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 00:15:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647916/SRX647916.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。