Job ID = 6527971 SRX = SRX3511957 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:11:50 prefetch.2.10.7: 1) Downloading 'SRR6418942'... 2020-06-29T14:11:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:13:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:13:05 prefetch.2.10.7: 'SRR6418942' is valid 2020-06-29T14:13:05 prefetch.2.10.7: 1) 'SRR6418942' was downloaded successfully 2020-06-29T14:13:05 prefetch.2.10.7: 'SRR6418942' has 0 unresolved dependencies Read 6257195 spots for SRR6418942/SRR6418942.sra Written 6257195 spots for SRR6418942/SRR6418942.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 6257195 reads; of these: 6257195 (100.00%) were unpaired; of these: 630918 (10.08%) aligned 0 times 4028281 (64.38%) aligned exactly 1 time 1597996 (25.54%) aligned >1 times 89.92% 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_rmdupse_core] 527367 / 5626277 = 0.0937 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 @ Mon, 29 Jun 2020 23:22:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.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 @ Mon, 29 Jun 2020 23:22:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:52: 1000000 INFO @ Mon, 29 Jun 2020 23:22:59: 2000000 INFO @ Mon, 29 Jun 2020 23:23:06: 3000000 INFO @ Mon, 29 Jun 2020 23:23:12: 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 @ Mon, 29 Jun 2020 23:23:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.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 @ Mon, 29 Jun 2020 23:23:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:23:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:23:19: 5000000 INFO @ Mon, 29 Jun 2020 23:23:20: #1 tag size is determined as 93 bps INFO @ Mon, 29 Jun 2020 23:23:20: #1 tag size = 93 INFO @ Mon, 29 Jun 2020 23:23:20: #1 total tags in treatment: 5098910 INFO @ Mon, 29 Jun 2020 23:23:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:23:20: #1 tags after filtering in treatment: 5098910 INFO @ Mon, 29 Jun 2020 23:23:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:20: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:20: #2 number of paired peaks: 56 WARNING @ Mon, 29 Jun 2020 23:23:20: Too few paired peaks (56) 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 @ Mon, 29 Jun 2020 23:23:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.05_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/SRX3511957/SRX3511957.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:21: 1000000 INFO @ Mon, 29 Jun 2020 23:23:28: 2000000 INFO @ Mon, 29 Jun 2020 23:23:34: 3000000 INFO @ Mon, 29 Jun 2020 23:23:40: 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 @ Mon, 29 Jun 2020 23:23:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.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 @ Mon, 29 Jun 2020 23:23:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:23:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:23:47: 5000000 INFO @ Mon, 29 Jun 2020 23:23:47: #1 tag size is determined as 93 bps INFO @ Mon, 29 Jun 2020 23:23:47: #1 tag size = 93 INFO @ Mon, 29 Jun 2020 23:23:47: #1 total tags in treatment: 5098910 INFO @ Mon, 29 Jun 2020 23:23:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:23:48: #1 tags after filtering in treatment: 5098910 INFO @ Mon, 29 Jun 2020 23:23:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:48: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:48: #2 number of paired peaks: 56 WARNING @ Mon, 29 Jun 2020 23:23:48: Too few paired peaks (56) 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 @ Mon, 29 Jun 2020 23:23:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:52: 1000000 INFO @ Mon, 29 Jun 2020 23:23:58: 2000000 INFO @ Mon, 29 Jun 2020 23:24:05: 3000000 INFO @ Mon, 29 Jun 2020 23:24:11: 4000000 INFO @ Mon, 29 Jun 2020 23:24:17: 5000000 INFO @ Mon, 29 Jun 2020 23:24:18: #1 tag size is determined as 93 bps INFO @ Mon, 29 Jun 2020 23:24:18: #1 tag size = 93 INFO @ Mon, 29 Jun 2020 23:24:18: #1 total tags in treatment: 5098910 INFO @ Mon, 29 Jun 2020 23:24:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:24:18: #1 tags after filtering in treatment: 5098910 INFO @ Mon, 29 Jun 2020 23:24:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:24:18: #2 number of paired peaks: 56 WARNING @ Mon, 29 Jun 2020 23:24:18: Too few paired peaks (56) 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 @ Mon, 29 Jun 2020 23:24:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.20_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/SRX3511957/SRX3511957.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511957/SRX3511957.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。