Job ID = 6527836 SRX = SRX287820 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:43:59 prefetch.2.10.7: 1) Downloading 'SRR870009'... 2020-06-29T13:43:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:46:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:46:23 prefetch.2.10.7: 'SRR870009' is valid 2020-06-29T13:46:23 prefetch.2.10.7: 1) 'SRR870009' was downloaded successfully Read 13272692 spots for SRR870009/SRR870009.sra Written 13272692 spots for SRR870009/SRR870009.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: 00:03:39 13272692 reads; of these: 13272692 (100.00%) were unpaired; of these: 541422 (4.08%) aligned 0 times 11388439 (85.80%) aligned exactly 1 time 1342831 (10.12%) aligned >1 times 95.92% overall alignment rate Time searching: 00:03:39 Overall time: 00:03:39 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] 955264 / 12731270 = 0.0750 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 22:57:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.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 22:57:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:21: 1000000 INFO @ Mon, 29 Jun 2020 22:57:27: 2000000 INFO @ Mon, 29 Jun 2020 22:57:34: 3000000 INFO @ Mon, 29 Jun 2020 22:57:40: 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 22:57:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.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 22:57:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:57:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:57:46: 5000000 INFO @ Mon, 29 Jun 2020 22:57:51: 1000000 INFO @ Mon, 29 Jun 2020 22:57:53: 6000000 INFO @ Mon, 29 Jun 2020 22:57:58: 2000000 INFO @ Mon, 29 Jun 2020 22:58:00: 7000000 INFO @ Mon, 29 Jun 2020 22:58:05: 3000000 INFO @ Mon, 29 Jun 2020 22:58:07: 8000000 INFO @ Mon, 29 Jun 2020 22:58:12: 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 @ Mon, 29 Jun 2020 22:58:14: 9000000 INFO @ Mon, 29 Jun 2020 22:58:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.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 22:58:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:58:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:58:19: 5000000 INFO @ Mon, 29 Jun 2020 22:58:21: 10000000 INFO @ Mon, 29 Jun 2020 22:58:21: 1000000 INFO @ Mon, 29 Jun 2020 22:58:26: 6000000 INFO @ Mon, 29 Jun 2020 22:58:27: 11000000 INFO @ Mon, 29 Jun 2020 22:58:28: 2000000 INFO @ Mon, 29 Jun 2020 22:58:32: 7000000 INFO @ Mon, 29 Jun 2020 22:58:33: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:58:33: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:58:33: #1 total tags in treatment: 11776006 INFO @ Mon, 29 Jun 2020 22:58:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:58:33: #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 22:58:33: #1 tags after filtering in treatment: 11776006 INFO @ Mon, 29 Jun 2020 22:58:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:58:33: #1 finished! INFO @ Mon, 29 Jun 2020 22:58:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:58:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:58:34: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 22:58:34: Too few paired peaks (87) 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 22:58:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.05_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/SRX287820/SRX287820.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:58:35: 3000000 INFO @ Mon, 29 Jun 2020 22:58:39: 8000000 INFO @ Mon, 29 Jun 2020 22:58:42: 4000000 INFO @ Mon, 29 Jun 2020 22:58:46: 9000000 INFO @ Mon, 29 Jun 2020 22:58:49: 5000000 INFO @ Mon, 29 Jun 2020 22:58:53: 10000000 INFO @ Mon, 29 Jun 2020 22:58:55: 6000000 INFO @ Mon, 29 Jun 2020 22:59:00: 11000000 INFO @ Mon, 29 Jun 2020 22:59:02: 7000000 INFO @ Mon, 29 Jun 2020 22:59:05: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:59:05: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:59:05: #1 total tags in treatment: 11776006 INFO @ Mon, 29 Jun 2020 22:59:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:59:05: #1 tags after filtering in treatment: 11776006 INFO @ Mon, 29 Jun 2020 22:59:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:05: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:06: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 22:59:06: Too few paired peaks (87) 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 22:59:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.10_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/SRX287820/SRX287820.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:59:09: 8000000 INFO @ Mon, 29 Jun 2020 22:59:15: 9000000 INFO @ Mon, 29 Jun 2020 22:59:22: 10000000 INFO @ Mon, 29 Jun 2020 22:59:28: 11000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:59:33: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:59:33: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:59:33: #1 total tags in treatment: 11776006 INFO @ Mon, 29 Jun 2020 22:59:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:59:33: #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 22:59:33: #1 tags after filtering in treatment: 11776006 INFO @ Mon, 29 Jun 2020 22:59:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:59:33: #1 finished! INFO @ Mon, 29 Jun 2020 22:59:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:59:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:59:34: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 22:59:34: Too few paired peaks (87) 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 22:59:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.20_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/SRX287820/SRX287820.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287820/SRX287820.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling