Job ID = 6527701 SRX = SRX2325645 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:07:54 prefetch.2.10.7: 1) Downloading 'SRR4896333'... 2020-06-29T13:07:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:10:59 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:10:59 prefetch.2.10.7: 1) 'SRR4896333' was downloaded successfully 2020-06-29T13:10:59 prefetch.2.10.7: 'SRR4896333' has 0 unresolved dependencies Read 36567916 spots for SRR4896333/SRR4896333.sra Written 36567916 spots for SRR4896333/SRR4896333.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: 00:14:45 36567916 reads; of these: 36567916 (100.00%) were unpaired; of these: 13404419 (36.66%) aligned 0 times 17968725 (49.14%) aligned exactly 1 time 5194772 (14.21%) aligned >1 times 63.34% overall alignment rate Time searching: 00:14:45 Overall time: 00:14:45 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 12 files... [bam_rmdupse_core] 6874716 / 23163497 = 0.2968 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 22:50:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.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 22:50:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:23: 1000000 INFO @ Mon, 29 Jun 2020 22:50:29: 2000000 INFO @ Mon, 29 Jun 2020 22:50:35: 3000000 INFO @ Mon, 29 Jun 2020 22:50:41: 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 22:50:47: 5000000 INFO @ Mon, 29 Jun 2020 22:50:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.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 22:50:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:54: 6000000 INFO @ Mon, 29 Jun 2020 22:50:54: 1000000 INFO @ Mon, 29 Jun 2020 22:51:00: 7000000 INFO @ Mon, 29 Jun 2020 22:51:01: 2000000 INFO @ Mon, 29 Jun 2020 22:51:07: 8000000 INFO @ Mon, 29 Jun 2020 22:51:07: 3000000 INFO @ Mon, 29 Jun 2020 22:51:13: 9000000 INFO @ Mon, 29 Jun 2020 22:51:14: 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 22:51:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.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 22:51:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:51:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:51:20: 10000000 INFO @ Mon, 29 Jun 2020 22:51:20: 5000000 INFO @ Mon, 29 Jun 2020 22:51:23: 1000000 INFO @ Mon, 29 Jun 2020 22:51:27: 11000000 INFO @ Mon, 29 Jun 2020 22:51:27: 6000000 INFO @ Mon, 29 Jun 2020 22:51:30: 2000000 INFO @ Mon, 29 Jun 2020 22:51:33: 12000000 INFO @ Mon, 29 Jun 2020 22:51:34: 7000000 INFO @ Mon, 29 Jun 2020 22:51:36: 3000000 INFO @ Mon, 29 Jun 2020 22:51:40: 13000000 INFO @ Mon, 29 Jun 2020 22:51:40: 8000000 INFO @ Mon, 29 Jun 2020 22:51:42: 4000000 INFO @ Mon, 29 Jun 2020 22:51:46: 14000000 INFO @ Mon, 29 Jun 2020 22:51:47: 9000000 INFO @ Mon, 29 Jun 2020 22:51:48: 5000000 INFO @ Mon, 29 Jun 2020 22:51:53: 15000000 INFO @ Mon, 29 Jun 2020 22:51:53: 10000000 INFO @ Mon, 29 Jun 2020 22:51:54: 6000000 INFO @ Mon, 29 Jun 2020 22:52:00: 16000000 INFO @ Mon, 29 Jun 2020 22:52:00: 11000000 INFO @ Mon, 29 Jun 2020 22:52:00: 7000000 INFO @ Mon, 29 Jun 2020 22:52:02: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:52:02: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:52:02: #1 total tags in treatment: 16288781 INFO @ Mon, 29 Jun 2020 22:52:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:02: #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 22:52:02: #1 tags after filtering in treatment: 16288781 INFO @ Mon, 29 Jun 2020 22:52:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:02: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:03: #2 number of paired peaks: 61 WARNING @ Mon, 29 Jun 2020 22:52:03: Too few paired peaks (61) 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 22:52:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.05_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/SRX2325645/SRX2325645.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:06: 12000000 INFO @ Mon, 29 Jun 2020 22:52:07: 8000000 INFO @ Mon, 29 Jun 2020 22:52:12: 13000000 INFO @ Mon, 29 Jun 2020 22:52:14: 9000000 INFO @ Mon, 29 Jun 2020 22:52:18: 14000000 INFO @ Mon, 29 Jun 2020 22:52:19: 10000000 INFO @ Mon, 29 Jun 2020 22:52:24: 15000000 INFO @ Mon, 29 Jun 2020 22:52:25: 11000000 INFO @ Mon, 29 Jun 2020 22:52:30: 16000000 INFO @ Mon, 29 Jun 2020 22:52:31: 12000000 INFO @ Mon, 29 Jun 2020 22:52:32: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:52:32: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:52:32: #1 total tags in treatment: 16288781 INFO @ Mon, 29 Jun 2020 22:52:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:32: #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 22:52:32: #1 tags after filtering in treatment: 16288781 INFO @ Mon, 29 Jun 2020 22:52:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:33: #2 number of paired peaks: 61 WARNING @ Mon, 29 Jun 2020 22:52:33: Too few paired peaks (61) 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 22:52:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.10_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/SRX2325645/SRX2325645.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:37: 13000000 INFO @ Mon, 29 Jun 2020 22:52:42: 14000000 INFO @ Mon, 29 Jun 2020 22:52:48: 15000000 INFO @ Mon, 29 Jun 2020 22:52:54: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:52:56: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:52:56: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:52:56: #1 total tags in treatment: 16288781 INFO @ Mon, 29 Jun 2020 22:52:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:56: #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 22:52:56: #1 tags after filtering in treatment: 16288781 INFO @ Mon, 29 Jun 2020 22:52:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:57: #2 number of paired peaks: 61 WARNING @ Mon, 29 Jun 2020 22:52:57: Too few paired peaks (61) 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 22:52:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.20_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/SRX2325645/SRX2325645.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325645/SRX2325645.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。