Job ID = 6527965 SRX = SRX3511944 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:17:20 prefetch.2.10.7: 1) Downloading 'SRR6418929'... 2020-06-29T14:17:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:19:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:19:03 prefetch.2.10.7: 1) 'SRR6418929' was downloaded successfully 2020-06-29T14:19:03 prefetch.2.10.7: 'SRR6418929' has 0 unresolved dependencies Read 12066483 spots for SRR6418929/SRR6418929.sra Written 12066483 spots for SRR6418929/SRR6418929.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: 00:06:18 12066483 reads; of these: 12066483 (100.00%) were unpaired; of these: 1490085 (12.35%) aligned 0 times 8775476 (72.73%) aligned exactly 1 time 1800922 (14.92%) aligned >1 times 87.65% overall alignment rate Time searching: 00:06:18 Overall time: 00:06:18 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] 404203 / 10576398 = 0.0382 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 23:43:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.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 23:43:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:11: 1000000 INFO @ Mon, 29 Jun 2020 23:43:19: 2000000 INFO @ Mon, 29 Jun 2020 23:43:27: 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 23:43:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.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 23:43:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:43:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:43:35: 4000000 INFO @ Mon, 29 Jun 2020 23:43:42: 1000000 INFO @ Mon, 29 Jun 2020 23:43:43: 5000000 INFO @ Mon, 29 Jun 2020 23:43:51: 2000000 INFO @ Mon, 29 Jun 2020 23:43:52: 6000000 INFO @ Mon, 29 Jun 2020 23:43:59: 7000000 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 23:44:01: 3000000 INFO @ Mon, 29 Jun 2020 23:44:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.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 23:44:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:44:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:44:07: 8000000 INFO @ Mon, 29 Jun 2020 23:44:10: 4000000 INFO @ Mon, 29 Jun 2020 23:44:13: 1000000 INFO @ Mon, 29 Jun 2020 23:44:16: 9000000 INFO @ Mon, 29 Jun 2020 23:44:20: 5000000 INFO @ Mon, 29 Jun 2020 23:44:22: 2000000 INFO @ Mon, 29 Jun 2020 23:44:24: 10000000 INFO @ Mon, 29 Jun 2020 23:44:25: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:44:25: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:44:25: #1 total tags in treatment: 10172195 INFO @ Mon, 29 Jun 2020 23:44:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:44:25: #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 23:44:25: #1 tags after filtering in treatment: 10172195 INFO @ Mon, 29 Jun 2020 23:44:25: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:44:25: #1 finished! INFO @ Mon, 29 Jun 2020 23:44:25: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:44:25: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:44:26: #2 number of paired peaks: 36 WARNING @ Mon, 29 Jun 2020 23:44:26: 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 23:44:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.05_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/SRX3511944/SRX3511944.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:44:30: 6000000 INFO @ Mon, 29 Jun 2020 23:44:32: 3000000 INFO @ Mon, 29 Jun 2020 23:44:39: 7000000 INFO @ Mon, 29 Jun 2020 23:44:41: 4000000 INFO @ Mon, 29 Jun 2020 23:44:48: 8000000 INFO @ Mon, 29 Jun 2020 23:44:51: 5000000 INFO @ Mon, 29 Jun 2020 23:44:58: 9000000 INFO @ Mon, 29 Jun 2020 23:45:00: 6000000 INFO @ Mon, 29 Jun 2020 23:45:07: 10000000 INFO @ Mon, 29 Jun 2020 23:45:08: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:45:08: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:45:08: #1 total tags in treatment: 10172195 INFO @ Mon, 29 Jun 2020 23:45:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:45:08: #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 23:45:09: #1 tags after filtering in treatment: 10172195 INFO @ Mon, 29 Jun 2020 23:45:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:45:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:45:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:45:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:45:09: #2 number of paired peaks: 36 WARNING @ Mon, 29 Jun 2020 23:45:09: 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 23:45:09: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 23:45:09: 7000000 cut: /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.10_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/SRX3511944/SRX3511944.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:45:18: 8000000 INFO @ Mon, 29 Jun 2020 23:45:26: 9000000 INFO @ Mon, 29 Jun 2020 23:45:35: 10000000 INFO @ Mon, 29 Jun 2020 23:45:36: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:45:36: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:45:36: #1 total tags in treatment: 10172195 INFO @ Mon, 29 Jun 2020 23:45:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:45:36: #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 23:45:36: #1 tags after filtering in treatment: 10172195 INFO @ Mon, 29 Jun 2020 23:45:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:45:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:45:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:45:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:45:37: #2 number of paired peaks: 36 WARNING @ Mon, 29 Jun 2020 23:45:37: 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 23:45:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.20_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/SRX3511944/SRX3511944.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511944/SRX3511944.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。