Job ID = 6527616 SRX = SRX1490784 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:00:09 prefetch.2.10.7: 1) Downloading 'SRR3031651'... 2020-06-29T13:00:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:01:30 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:01:30 prefetch.2.10.7: 'SRR3031651' is valid 2020-06-29T13:01:30 prefetch.2.10.7: 1) 'SRR3031651' was downloaded successfully Read 14917945 spots for SRR3031651/SRR3031651.sra Written 14917945 spots for SRR3031651/SRR3031651.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: 00:04:45 14917945 reads; of these: 14917945 (100.00%) were unpaired; of these: 965918 (6.47%) aligned 0 times 11105323 (74.44%) aligned exactly 1 time 2846704 (19.08%) aligned >1 times 93.53% overall alignment rate Time searching: 00:04:45 Overall time: 00:04:45 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] 889837 / 13952027 = 0.0638 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 22:14:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.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 22:14:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:14:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:14:50: 1000000 INFO @ Mon, 29 Jun 2020 22:14:55: 2000000 INFO @ Mon, 29 Jun 2020 22:15:01: 3000000 INFO @ Mon, 29 Jun 2020 22:15:06: 4000000 INFO @ Mon, 29 Jun 2020 22:15:11: 5000000 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 22:15:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.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 22:15:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:16: 6000000 INFO @ Mon, 29 Jun 2020 22:15:20: 1000000 INFO @ Mon, 29 Jun 2020 22:15:22: 7000000 INFO @ Mon, 29 Jun 2020 22:15:26: 2000000 INFO @ Mon, 29 Jun 2020 22:15:27: 8000000 INFO @ Mon, 29 Jun 2020 22:15:31: 3000000 INFO @ Mon, 29 Jun 2020 22:15:32: 9000000 INFO @ Mon, 29 Jun 2020 22:15:37: 4000000 INFO @ Mon, 29 Jun 2020 22:15:38: 10000000 INFO @ Mon, 29 Jun 2020 22:15:42: 5000000 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 22:15:43: 11000000 INFO @ Mon, 29 Jun 2020 22:15:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.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 22:15:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:48: 6000000 INFO @ Mon, 29 Jun 2020 22:15:49: 12000000 INFO @ Mon, 29 Jun 2020 22:15:50: 1000000 INFO @ Mon, 29 Jun 2020 22:15:54: 7000000 INFO @ Mon, 29 Jun 2020 22:15:54: 13000000 INFO @ Mon, 29 Jun 2020 22:15:55: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:15:55: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:15:55: #1 total tags in treatment: 13062190 INFO @ Mon, 29 Jun 2020 22:15:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:15:55: #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 22:15:55: #1 tags after filtering in treatment: 13062190 INFO @ Mon, 29 Jun 2020 22:15:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:15:55: #1 finished! INFO @ Mon, 29 Jun 2020 22:15:55: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:15:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:15:56: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:15:56: Too few paired peaks (30) 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 22:15:56: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 22:15:56: 2000000 cut: /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.05_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/SRX1490784/SRX1490784.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:15:59: 8000000 INFO @ Mon, 29 Jun 2020 22:16:01: 3000000 INFO @ Mon, 29 Jun 2020 22:16:05: 9000000 INFO @ Mon, 29 Jun 2020 22:16:07: 4000000 INFO @ Mon, 29 Jun 2020 22:16:10: 10000000 INFO @ Mon, 29 Jun 2020 22:16:12: 5000000 INFO @ Mon, 29 Jun 2020 22:16:15: 11000000 INFO @ Mon, 29 Jun 2020 22:16:18: 6000000 INFO @ Mon, 29 Jun 2020 22:16:21: 12000000 INFO @ Mon, 29 Jun 2020 22:16:23: 7000000 INFO @ Mon, 29 Jun 2020 22:16:26: 13000000 INFO @ Mon, 29 Jun 2020 22:16:27: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:16:27: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:16:27: #1 total tags in treatment: 13062190 INFO @ Mon, 29 Jun 2020 22:16:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:27: #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 22:16:27: #1 tags after filtering in treatment: 13062190 INFO @ Mon, 29 Jun 2020 22:16:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:27: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:28: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:16:28: Too few paired peaks (30) 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 22:16:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.10_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/SRX1490784/SRX1490784.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:29: 8000000 INFO @ Mon, 29 Jun 2020 22:16:34: 9000000 INFO @ Mon, 29 Jun 2020 22:16:39: 10000000 INFO @ Mon, 29 Jun 2020 22:16:45: 11000000 INFO @ Mon, 29 Jun 2020 22:16:50: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:16:55: 13000000 INFO @ Mon, 29 Jun 2020 22:16:56: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:16:56: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:16:56: #1 total tags in treatment: 13062190 INFO @ Mon, 29 Jun 2020 22:16:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:56: #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 22:16:56: #1 tags after filtering in treatment: 13062190 INFO @ Mon, 29 Jun 2020 22:16:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:57: #2 number of paired peaks: 30 WARNING @ Mon, 29 Jun 2020 22:16:57: Too few paired peaks (30) 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 22:16:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.20_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/SRX1490784/SRX1490784.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1490784/SRX1490784.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。