Job ID = 6626954 SRX = SRX7780058 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-13T23:59:47 prefetch.2.10.7: 1) Downloading 'SRR11143813'... 2020-07-13T23:59:47 prefetch.2.10.7: Downloading via HTTPS... 2020-07-14T00:00:28 prefetch.2.10.7: HTTPS download succeed 2020-07-14T00:00:28 prefetch.2.10.7: 'SRR11143813' is valid 2020-07-14T00:00:28 prefetch.2.10.7: 1) 'SRR11143813' was downloaded successfully Read 14528564 spots for SRR11143813/SRR11143813.sra Written 14528564 spots for SRR11143813/SRR11143813.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627086 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:00 14528564 reads; of these: 14528564 (100.00%) were unpaired; of these: 1615137 (11.12%) aligned 0 times 9596789 (66.05%) aligned exactly 1 time 3316638 (22.83%) aligned >1 times 88.88% overall alignment rate Time searching: 00:04:00 Overall time: 00:04:00 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] 1840136 / 12913427 = 0.1425 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, 14 Jul 2020 09:08:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.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, 14 Jul 2020 09:08:16: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:08:16: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:08:24: 1000000 INFO @ Tue, 14 Jul 2020 09:08:32: 2000000 INFO @ Tue, 14 Jul 2020 09:08:39: 3000000 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, 14 Jul 2020 09:08:45: 4000000 INFO @ Tue, 14 Jul 2020 09:08:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.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, 14 Jul 2020 09:08:46: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:08:46: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:08:51: 5000000 INFO @ Tue, 14 Jul 2020 09:08:52: 1000000 INFO @ Tue, 14 Jul 2020 09:08:57: 6000000 INFO @ Tue, 14 Jul 2020 09:08:59: 2000000 INFO @ Tue, 14 Jul 2020 09:09:04: 7000000 INFO @ Tue, 14 Jul 2020 09:09:05: 3000000 INFO @ Tue, 14 Jul 2020 09:09:11: 8000000 INFO @ Tue, 14 Jul 2020 09:09:12: 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, 14 Jul 2020 09:09:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.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, 14 Jul 2020 09:09:16: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:09:16: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:09:18: 9000000 INFO @ Tue, 14 Jul 2020 09:09:19: 5000000 INFO @ Tue, 14 Jul 2020 09:09:22: 1000000 INFO @ Tue, 14 Jul 2020 09:09:25: 10000000 INFO @ Tue, 14 Jul 2020 09:09:25: 6000000 INFO @ Tue, 14 Jul 2020 09:09:28: 2000000 INFO @ Tue, 14 Jul 2020 09:09:31: 11000000 INFO @ Tue, 14 Jul 2020 09:09:32: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:09:32: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:09:32: #1 total tags in treatment: 11073291 INFO @ Tue, 14 Jul 2020 09:09:32: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:09:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:09:32: #1 tags after filtering in treatment: 11073291 INFO @ Tue, 14 Jul 2020 09:09:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:09:32: #1 finished! INFO @ Tue, 14 Jul 2020 09:09:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:09:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:09:32: 7000000 INFO @ Tue, 14 Jul 2020 09:09:33: #2 number of paired peaks: 68 WARNING @ Tue, 14 Jul 2020 09:09:33: Too few paired peaks (68) 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, 14 Jul 2020 09:09:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:09:34: 3000000 INFO @ Tue, 14 Jul 2020 09:09:39: 8000000 INFO @ Tue, 14 Jul 2020 09:09:40: 4000000 INFO @ Tue, 14 Jul 2020 09:09:46: 5000000 INFO @ Tue, 14 Jul 2020 09:09:46: 9000000 INFO @ Tue, 14 Jul 2020 09:09:52: 6000000 INFO @ Tue, 14 Jul 2020 09:09:53: 10000000 INFO @ Tue, 14 Jul 2020 09:09:58: 7000000 INFO @ Tue, 14 Jul 2020 09:09:59: 11000000 INFO @ Tue, 14 Jul 2020 09:10:00: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:10:00: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:10:00: #1 total tags in treatment: 11073291 INFO @ Tue, 14 Jul 2020 09:10:00: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:10:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:10:00: #1 tags after filtering in treatment: 11073291 INFO @ Tue, 14 Jul 2020 09:10:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:10:00: #1 finished! INFO @ Tue, 14 Jul 2020 09:10:00: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:10:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:10:01: #2 number of paired peaks: 68 WARNING @ Tue, 14 Jul 2020 09:10:01: Too few paired peaks (68) 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, 14 Jul 2020 09:10:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:10:04: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 09:10:10: 9000000 INFO @ Tue, 14 Jul 2020 09:10:17: 10000000 INFO @ Tue, 14 Jul 2020 09:10:23: 11000000 INFO @ Tue, 14 Jul 2020 09:10:24: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:10:24: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:10:24: #1 total tags in treatment: 11073291 INFO @ Tue, 14 Jul 2020 09:10:24: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:10:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:10:24: #1 tags after filtering in treatment: 11073291 INFO @ Tue, 14 Jul 2020 09:10:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:10:24: #1 finished! INFO @ Tue, 14 Jul 2020 09:10:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:10:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:10:24: #2 number of paired peaks: 68 WARNING @ Tue, 14 Jul 2020 09:10:24: Too few paired peaks (68) 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, 14 Jul 2020 09:10:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780058/SRX7780058.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。