Job ID = 6528317 SRX = SRX5343139 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:36:51 prefetch.2.10.7: 1) Downloading 'SRR8540839'... 2020-06-29T14:36:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:38:56 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:38:57 prefetch.2.10.7: 'SRR8540839' is valid 2020-06-29T14:38:57 prefetch.2.10.7: 1) 'SRR8540839' was downloaded successfully 2020-06-29T14:38:57 prefetch.2.10.7: 'SRR8540839' has 0 unresolved dependencies Read 15155134 spots for SRR8540839/SRR8540839.sra Written 15155134 spots for SRR8540839/SRR8540839.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: 00:05:10 15155134 reads; of these: 15155134 (100.00%) were unpaired; of these: 616283 (4.07%) aligned 0 times 12318338 (81.28%) aligned exactly 1 time 2220513 (14.65%) aligned >1 times 95.93% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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] 2273508 / 14538851 = 0.1564 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 23:57:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.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 23:57:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:57:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:57:48: 1000000 INFO @ Mon, 29 Jun 2020 23:57:53: 2000000 INFO @ Mon, 29 Jun 2020 23:57:59: 3000000 INFO @ Mon, 29 Jun 2020 23:58:04: 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 23:58:10: 5000000 INFO @ Mon, 29 Jun 2020 23:58:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.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 23:58:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:58:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:58:15: 6000000 INFO @ Mon, 29 Jun 2020 23:58:19: 1000000 INFO @ Mon, 29 Jun 2020 23:58:21: 7000000 INFO @ Mon, 29 Jun 2020 23:58:26: 2000000 INFO @ Mon, 29 Jun 2020 23:58:26: 8000000 INFO @ Mon, 29 Jun 2020 23:58:32: 9000000 INFO @ Mon, 29 Jun 2020 23:58:33: 3000000 INFO @ Mon, 29 Jun 2020 23:58:38: 10000000 INFO @ Mon, 29 Jun 2020 23:58:39: 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 23:58:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.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 23:58:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:58:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:58:44: 11000000 INFO @ Mon, 29 Jun 2020 23:58:45: 5000000 INFO @ Mon, 29 Jun 2020 23:58:48: 1000000 INFO @ Mon, 29 Jun 2020 23:58:50: 12000000 INFO @ Mon, 29 Jun 2020 23:58:51: 6000000 INFO @ Mon, 29 Jun 2020 23:58:51: #1 tag size is determined as 65 bps INFO @ Mon, 29 Jun 2020 23:58:51: #1 tag size = 65 INFO @ Mon, 29 Jun 2020 23:58:51: #1 total tags in treatment: 12265343 INFO @ Mon, 29 Jun 2020 23:58:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:58:51: #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 23:58:52: #1 tags after filtering in treatment: 12265343 INFO @ Mon, 29 Jun 2020 23:58:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:58:52: #1 finished! INFO @ Mon, 29 Jun 2020 23:58:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:58:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:58:53: #2 number of paired peaks: 58 WARNING @ Mon, 29 Jun 2020 23:58:53: Too few paired peaks (58) 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 23:58:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.05_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/SRX5343139/SRX5343139.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:58:54: 2000000 INFO @ Mon, 29 Jun 2020 23:58:56: 7000000 INFO @ Mon, 29 Jun 2020 23:58:59: 3000000 INFO @ Mon, 29 Jun 2020 23:59:02: 8000000 INFO @ Mon, 29 Jun 2020 23:59:05: 4000000 INFO @ Mon, 29 Jun 2020 23:59:08: 9000000 INFO @ Mon, 29 Jun 2020 23:59:10: 5000000 INFO @ Mon, 29 Jun 2020 23:59:14: 10000000 INFO @ Mon, 29 Jun 2020 23:59:16: 6000000 INFO @ Mon, 29 Jun 2020 23:59:20: 11000000 INFO @ Mon, 29 Jun 2020 23:59:21: 7000000 INFO @ Mon, 29 Jun 2020 23:59:26: 12000000 INFO @ Mon, 29 Jun 2020 23:59:27: 8000000 INFO @ Mon, 29 Jun 2020 23:59:28: #1 tag size is determined as 65 bps INFO @ Mon, 29 Jun 2020 23:59:28: #1 tag size = 65 INFO @ Mon, 29 Jun 2020 23:59:28: #1 total tags in treatment: 12265343 INFO @ Mon, 29 Jun 2020 23:59:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:28: #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 23:59:28: #1 tags after filtering in treatment: 12265343 INFO @ Mon, 29 Jun 2020 23:59:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:59:28: #1 finished! INFO @ Mon, 29 Jun 2020 23:59:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:59:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:59:29: #2 number of paired peaks: 58 WARNING @ Mon, 29 Jun 2020 23:59:29: Too few paired peaks (58) 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 23:59:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.10_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/SRX5343139/SRX5343139.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:59:32: 9000000 INFO @ Mon, 29 Jun 2020 23:59:37: 10000000 INFO @ Mon, 29 Jun 2020 23:59:43: 11000000 INFO @ Mon, 29 Jun 2020 23:59:48: 12000000 INFO @ Mon, 29 Jun 2020 23:59:50: #1 tag size is determined as 65 bps INFO @ Mon, 29 Jun 2020 23:59:50: #1 tag size = 65 INFO @ Mon, 29 Jun 2020 23:59:50: #1 total tags in treatment: 12265343 INFO @ Mon, 29 Jun 2020 23:59:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:50: #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 23:59:50: #1 tags after filtering in treatment: 12265343 INFO @ Mon, 29 Jun 2020 23:59:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:59:50: #1 finished! INFO @ Mon, 29 Jun 2020 23:59:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:59:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:59:51: #2 number of paired peaks: 58 WARNING @ Mon, 29 Jun 2020 23:59:51: Too few paired peaks (58) 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 23:59:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.20_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/SRX5343139/SRX5343139.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343139/SRX5343139.20_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。