Job ID = 6527664 SRX = SRX2010898 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:19:05 prefetch.2.10.7: 1) Downloading 'SRR4017021'... 2020-06-29T13:19:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:21:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:21:20 prefetch.2.10.7: 'SRR4017021' is valid 2020-06-29T13:21:20 prefetch.2.10.7: 1) 'SRR4017021' was downloaded successfully Read 17621869 spots for SRR4017021/SRR4017021.sra Written 17621869 spots for SRR4017021/SRR4017021.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: 00:06:30 17621869 reads; of these: 17621869 (100.00%) were unpaired; of these: 396548 (2.25%) aligned 0 times 12014460 (68.18%) aligned exactly 1 time 5210861 (29.57%) aligned >1 times 97.75% overall alignment rate Time searching: 00:06:30 Overall time: 00:06:30 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] 3431410 / 17225321 = 0.1992 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 22:36:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.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 22:36:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:36:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:37:05: 1000000 INFO @ Mon, 29 Jun 2020 22:37:12: 2000000 INFO @ Mon, 29 Jun 2020 22:37:19: 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 22:37:26: 4000000 INFO @ Mon, 29 Jun 2020 22:37:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.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 22:37:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:37:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:37:33: 5000000 INFO @ Mon, 29 Jun 2020 22:37:35: 1000000 INFO @ Mon, 29 Jun 2020 22:37:40: 6000000 INFO @ Mon, 29 Jun 2020 22:37:42: 2000000 INFO @ Mon, 29 Jun 2020 22:37:46: 7000000 INFO @ Mon, 29 Jun 2020 22:37:49: 3000000 INFO @ Mon, 29 Jun 2020 22:37:52: 8000000 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 22:37:57: 4000000 INFO @ Mon, 29 Jun 2020 22:37:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.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 22:37:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:37:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:37:59: 9000000 INFO @ Mon, 29 Jun 2020 22:38:04: 5000000 INFO @ Mon, 29 Jun 2020 22:38:05: 1000000 INFO @ Mon, 29 Jun 2020 22:38:06: 10000000 INFO @ Mon, 29 Jun 2020 22:38:11: 6000000 INFO @ Mon, 29 Jun 2020 22:38:12: 2000000 INFO @ Mon, 29 Jun 2020 22:38:14: 11000000 INFO @ Mon, 29 Jun 2020 22:38:18: 7000000 INFO @ Mon, 29 Jun 2020 22:38:20: 3000000 INFO @ Mon, 29 Jun 2020 22:38:22: 12000000 INFO @ Mon, 29 Jun 2020 22:38:26: 8000000 INFO @ Mon, 29 Jun 2020 22:38:27: 4000000 INFO @ Mon, 29 Jun 2020 22:38:29: 13000000 INFO @ Mon, 29 Jun 2020 22:38:33: 9000000 INFO @ Mon, 29 Jun 2020 22:38:34: 5000000 INFO @ Mon, 29 Jun 2020 22:38:35: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:38:35: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:38:35: #1 total tags in treatment: 13793911 INFO @ Mon, 29 Jun 2020 22:38:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:38:35: #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 22:38:35: #1 tags after filtering in treatment: 13793911 INFO @ Mon, 29 Jun 2020 22:38:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:38:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:38:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:38:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:38:36: #2 number of paired peaks: 53 WARNING @ Mon, 29 Jun 2020 22:38:36: Too few paired peaks (53) 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 22:38:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.05_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/SRX2010898/SRX2010898.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:38:40: 10000000 INFO @ Mon, 29 Jun 2020 22:38:41: 6000000 INFO @ Mon, 29 Jun 2020 22:38:47: 11000000 INFO @ Mon, 29 Jun 2020 22:38:47: 7000000 INFO @ Mon, 29 Jun 2020 22:38:54: 12000000 INFO @ Mon, 29 Jun 2020 22:38:54: 8000000 INFO @ Mon, 29 Jun 2020 22:39:01: 13000000 INFO @ Mon, 29 Jun 2020 22:39:01: 9000000 INFO @ Mon, 29 Jun 2020 22:39:06: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:39:06: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:39:06: #1 total tags in treatment: 13793911 INFO @ Mon, 29 Jun 2020 22:39:06: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:39:06: #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 22:39:06: #1 tags after filtering in treatment: 13793911 INFO @ Mon, 29 Jun 2020 22:39:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:39:06: #1 finished! INFO @ Mon, 29 Jun 2020 22:39:06: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:39:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:39:07: #2 number of paired peaks: 53 WARNING @ Mon, 29 Jun 2020 22:39:07: Too few paired peaks (53) 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 22:39:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.10_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/SRX2010898/SRX2010898.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:39:08: 10000000 INFO @ Mon, 29 Jun 2020 22:39:14: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:39:21: 12000000 INFO @ Mon, 29 Jun 2020 22:39:27: 13000000 INFO @ Mon, 29 Jun 2020 22:39:32: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:39:32: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:39:32: #1 total tags in treatment: 13793911 INFO @ Mon, 29 Jun 2020 22:39:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:39:32: #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 22:39:32: #1 tags after filtering in treatment: 13793911 INFO @ Mon, 29 Jun 2020 22:39:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:39:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:39:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:39:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:39:33: #2 number of paired peaks: 53 WARNING @ Mon, 29 Jun 2020 22:39:33: Too few paired peaks (53) 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 22:39:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2010898/SRX2010898.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。