Job ID = 6527708 SRX = SRX2325650 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:01:09 prefetch.2.10.7: 1) Downloading 'SRR4896338'... 2020-06-29T13:01:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:33 prefetch.2.10.7: 1) 'SRR4896338' was downloaded successfully 2020-06-29T13:05:33 prefetch.2.10.7: 'SRR4896338' has 0 unresolved dependencies Read 45978696 spots for SRR4896338/SRR4896338.sra Written 45978696 spots for SRR4896338/SRR4896338.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: 00:12:16 45978696 reads; of these: 45978696 (100.00%) were unpaired; of these: 26716327 (58.11%) aligned 0 times 14679614 (31.93%) aligned exactly 1 time 4582755 (9.97%) aligned >1 times 41.89% overall alignment rate Time searching: 00:12:16 Overall time: 00:12:16 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] 8263879 / 19262369 = 0.4290 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 22:39:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.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 22:39:27: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:39:27: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:39:34: 1000000 INFO @ Mon, 29 Jun 2020 22:39:41: 2000000 INFO @ Mon, 29 Jun 2020 22:39:48: 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 @ Mon, 29 Jun 2020 22:39:55: 4000000 INFO @ Mon, 29 Jun 2020 22:39:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.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 22:39:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:39:57: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:40:03: 5000000 INFO @ Mon, 29 Jun 2020 22:40:04: 1000000 INFO @ Mon, 29 Jun 2020 22:40:10: 6000000 INFO @ Mon, 29 Jun 2020 22:40:12: 2000000 INFO @ Mon, 29 Jun 2020 22:40:18: 7000000 INFO @ Mon, 29 Jun 2020 22:40:19: 3000000 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 22:40:26: 8000000 INFO @ Mon, 29 Jun 2020 22:40:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.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 22:40:27: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:40:27: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:40:27: 4000000 INFO @ Mon, 29 Jun 2020 22:40:33: 9000000 INFO @ Mon, 29 Jun 2020 22:40:34: 1000000 INFO @ Mon, 29 Jun 2020 22:40:35: 5000000 INFO @ Mon, 29 Jun 2020 22:40:41: 2000000 INFO @ Mon, 29 Jun 2020 22:40:41: 10000000 INFO @ Mon, 29 Jun 2020 22:40:43: 6000000 INFO @ Mon, 29 Jun 2020 22:40:48: 3000000 INFO @ Mon, 29 Jun 2020 22:40:49: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:40:49: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:40:49: #1 total tags in treatment: 10998490 INFO @ Mon, 29 Jun 2020 22:40:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:49: #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 22:40:49: #1 tags after filtering in treatment: 10998490 INFO @ Mon, 29 Jun 2020 22:40:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:49: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:49: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:50: #2 number of paired peaks: 36 WARNING @ Mon, 29 Jun 2020 22:40:50: Too few paired peaks (36) 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 22:40:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.05_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/SRX2325650/SRX2325650.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:40:50: 7000000 INFO @ Mon, 29 Jun 2020 22:40:55: 4000000 INFO @ Mon, 29 Jun 2020 22:40:58: 8000000 INFO @ Mon, 29 Jun 2020 22:41:02: 5000000 INFO @ Mon, 29 Jun 2020 22:41:06: 9000000 INFO @ Mon, 29 Jun 2020 22:41:09: 6000000 INFO @ Mon, 29 Jun 2020 22:41:14: 10000000 INFO @ Mon, 29 Jun 2020 22:41:16: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:41:21: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:41:21: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:41:21: #1 total tags in treatment: 10998490 INFO @ Mon, 29 Jun 2020 22:41:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:41:21: #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 22:41:21: #1 tags after filtering in treatment: 10998490 INFO @ Mon, 29 Jun 2020 22:41:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:41:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:41:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:41:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:41:22: #2 number of paired peaks: 36 WARNING @ Mon, 29 Jun 2020 22:41:22: Too few paired peaks (36) 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 22:41:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.10_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/SRX2325650/SRX2325650.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:41:23: 8000000 INFO @ Mon, 29 Jun 2020 22:41:29: 9000000 INFO @ Mon, 29 Jun 2020 22:41:36: 10000000 INFO @ Mon, 29 Jun 2020 22:41:42: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:41:42: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:41:42: #1 total tags in treatment: 10998490 INFO @ Mon, 29 Jun 2020 22:41:42: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:41:42: #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 22:41:43: #1 tags after filtering in treatment: 10998490 INFO @ Mon, 29 Jun 2020 22:41:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:41:43: #1 finished! INFO @ Mon, 29 Jun 2020 22:41:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:41:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:41:43: #2 number of paired peaks: 36 WARNING @ Mon, 29 Jun 2020 22:41:43: Too few paired peaks (36) 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 22:41:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.20_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/SRX2325650/SRX2325650.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325650/SRX2325650.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。