Job ID = 6528282 SRX = SRX5241025 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:55:58 prefetch.2.10.7: 1) Downloading 'SRR8433306'... 2020-06-29T14:55:58 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:57:58 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:57:58 prefetch.2.10.7: 1) 'SRR8433306' was downloaded successfully 2020-06-29T14:57:58 prefetch.2.10.7: 'SRR8433306' has 0 unresolved dependencies Read 23925184 spots for SRR8433306/SRR8433306.sra Written 23925184 spots for SRR8433306/SRR8433306.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 23925184 reads; of these: 23925184 (100.00%) were unpaired; of these: 1088235 (4.55%) aligned 0 times 16202512 (67.72%) aligned exactly 1 time 6634437 (27.73%) aligned >1 times 95.45% 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] 3248193 / 22836949 = 0.1422 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 @ Tue, 30 Jun 2020 00:28:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.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 @ Tue, 30 Jun 2020 00:28:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:28:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:04: 1000000 INFO @ Tue, 30 Jun 2020 00:29:12: 2000000 INFO @ Tue, 30 Jun 2020 00:29:19: 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 @ Tue, 30 Jun 2020 00:29:26: 4000000 INFO @ Tue, 30 Jun 2020 00:29:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.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 @ Tue, 30 Jun 2020 00:29:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:35: 5000000 INFO @ Tue, 30 Jun 2020 00:29:35: 1000000 INFO @ Tue, 30 Jun 2020 00:29:43: 6000000 INFO @ Tue, 30 Jun 2020 00:29:43: 2000000 INFO @ Tue, 30 Jun 2020 00:29:51: 7000000 INFO @ Tue, 30 Jun 2020 00:29:51: 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 @ Tue, 30 Jun 2020 00:29:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.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 @ Tue, 30 Jun 2020 00:29:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:59: 8000000 INFO @ Tue, 30 Jun 2020 00:29:59: 4000000 INFO @ Tue, 30 Jun 2020 00:30:05: 1000000 INFO @ Tue, 30 Jun 2020 00:30:07: 5000000 INFO @ Tue, 30 Jun 2020 00:30:07: 9000000 INFO @ Tue, 30 Jun 2020 00:30:14: 2000000 INFO @ Tue, 30 Jun 2020 00:30:15: 10000000 INFO @ Tue, 30 Jun 2020 00:30:16: 6000000 INFO @ Tue, 30 Jun 2020 00:30:22: 3000000 INFO @ Tue, 30 Jun 2020 00:30:24: 7000000 INFO @ Tue, 30 Jun 2020 00:30:24: 11000000 INFO @ Tue, 30 Jun 2020 00:30:30: 4000000 INFO @ Tue, 30 Jun 2020 00:30:32: 8000000 INFO @ Tue, 30 Jun 2020 00:30:32: 12000000 INFO @ Tue, 30 Jun 2020 00:30:39: 5000000 INFO @ Tue, 30 Jun 2020 00:30:40: 9000000 INFO @ Tue, 30 Jun 2020 00:30:41: 13000000 INFO @ Tue, 30 Jun 2020 00:30:47: 6000000 INFO @ Tue, 30 Jun 2020 00:30:48: 10000000 INFO @ Tue, 30 Jun 2020 00:30:49: 14000000 INFO @ Tue, 30 Jun 2020 00:30:55: 7000000 INFO @ Tue, 30 Jun 2020 00:30:56: 11000000 INFO @ Tue, 30 Jun 2020 00:30:58: 15000000 INFO @ Tue, 30 Jun 2020 00:31:04: 8000000 INFO @ Tue, 30 Jun 2020 00:31:05: 12000000 INFO @ Tue, 30 Jun 2020 00:31:06: 16000000 INFO @ Tue, 30 Jun 2020 00:31:12: 9000000 INFO @ Tue, 30 Jun 2020 00:31:13: 13000000 INFO @ Tue, 30 Jun 2020 00:31:14: 17000000 INFO @ Tue, 30 Jun 2020 00:31:20: 10000000 INFO @ Tue, 30 Jun 2020 00:31:21: 14000000 INFO @ Tue, 30 Jun 2020 00:31:23: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:31:29: 11000000 INFO @ Tue, 30 Jun 2020 00:31:29: 15000000 INFO @ Tue, 30 Jun 2020 00:31:31: 19000000 INFO @ Tue, 30 Jun 2020 00:31:36: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:31:36: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:31:36: #1 total tags in treatment: 19588756 INFO @ Tue, 30 Jun 2020 00:31:36: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:31:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:31:36: #1 tags after filtering in treatment: 19588756 INFO @ Tue, 30 Jun 2020 00:31:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:31:36: #1 finished! INFO @ Tue, 30 Jun 2020 00:31:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:31:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:31:37: #2 number of paired peaks: 83 WARNING @ Tue, 30 Jun 2020 00:31:37: Too few paired peaks (83) 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 @ Tue, 30 Jun 2020 00:31:37: Process for pairing-model is terminated! INFO @ Tue, 30 Jun 2020 00:31:37: 12000000 INFO @ Tue, 30 Jun 2020 00:31:37: 16000000 cut: /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.05_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/SRX5241025/SRX5241025.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:31:46: 17000000 INFO @ Tue, 30 Jun 2020 00:31:46: 13000000 INFO @ Tue, 30 Jun 2020 00:31:54: 18000000 INFO @ Tue, 30 Jun 2020 00:31:54: 14000000 INFO @ Tue, 30 Jun 2020 00:32:02: 19000000 INFO @ Tue, 30 Jun 2020 00:32:03: 15000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:32:06: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:32:06: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:32:06: #1 total tags in treatment: 19588756 INFO @ Tue, 30 Jun 2020 00:32:06: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:32:07: #1 tags after filtering in treatment: 19588756 INFO @ Tue, 30 Jun 2020 00:32:07: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:07: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:07: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:08: #2 number of paired peaks: 83 WARNING @ Tue, 30 Jun 2020 00:32:08: Too few paired peaks (83) 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 @ Tue, 30 Jun 2020 00:32:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.10_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/SRX5241025/SRX5241025.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:32:11: 16000000 INFO @ Tue, 30 Jun 2020 00:32:19: 17000000 INFO @ Tue, 30 Jun 2020 00:32:26: 18000000 INFO @ Tue, 30 Jun 2020 00:32:33: 19000000 INFO @ Tue, 30 Jun 2020 00:32:38: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:32:38: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:32:38: #1 total tags in treatment: 19588756 INFO @ Tue, 30 Jun 2020 00:32:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:32:38: #1 tags after filtering in treatment: 19588756 INFO @ Tue, 30 Jun 2020 00:32:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:38: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:39: #2 number of paired peaks: 83 WARNING @ Tue, 30 Jun 2020 00:32:39: Too few paired peaks (83) 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 @ Tue, 30 Jun 2020 00:32:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.20_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/SRX5241025/SRX5241025.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5241025/SRX5241025.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling