Job ID = 6498385 SRX = SRX495220 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T23:27:02 prefetch.2.10.7: 1) Downloading 'SRR1198725'... 2020-06-25T23:27:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T23:29:39 prefetch.2.10.7: HTTPS download succeed 2020-06-25T23:29:40 prefetch.2.10.7: 'SRR1198725' is valid 2020-06-25T23:29:40 prefetch.2.10.7: 1) 'SRR1198725' was downloaded successfully Read 15841233 spots for SRR1198725/SRR1198725.sra Written 15841233 spots for SRR1198725/SRR1198725.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: 00:04:58 15841233 reads; of these: 15841233 (100.00%) were unpaired; of these: 408721 (2.58%) aligned 0 times 11754930 (74.20%) aligned exactly 1 time 3677582 (23.22%) aligned >1 times 97.42% overall alignment rate Time searching: 00:04:58 Overall time: 00:04:58 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] 3453043 / 15432512 = 0.2238 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 @ Fri, 26 Jun 2020 08:39:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.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 @ Fri, 26 Jun 2020 08:39:12: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:39:12: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:39:18: 1000000 INFO @ Fri, 26 Jun 2020 08:39:24: 2000000 INFO @ Fri, 26 Jun 2020 08:39:29: 3000000 INFO @ Fri, 26 Jun 2020 08:39:35: 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 @ Fri, 26 Jun 2020 08:39:41: 5000000 INFO @ Fri, 26 Jun 2020 08:39:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.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 @ Fri, 26 Jun 2020 08:39:42: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:39:42: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:39:47: 6000000 INFO @ Fri, 26 Jun 2020 08:39:47: 1000000 INFO @ Fri, 26 Jun 2020 08:39:53: 2000000 INFO @ Fri, 26 Jun 2020 08:39:53: 7000000 INFO @ Fri, 26 Jun 2020 08:39:59: 3000000 INFO @ Fri, 26 Jun 2020 08:39:59: 8000000 INFO @ Fri, 26 Jun 2020 08:40:04: 4000000 INFO @ Fri, 26 Jun 2020 08:40:05: 9000000 INFO @ Fri, 26 Jun 2020 08:40:10: 5000000 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 @ Fri, 26 Jun 2020 08:40:11: 10000000 INFO @ Fri, 26 Jun 2020 08:40:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.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 @ Fri, 26 Jun 2020 08:40:12: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:40:12: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:40:15: 6000000 INFO @ Fri, 26 Jun 2020 08:40:17: 11000000 INFO @ Fri, 26 Jun 2020 08:40:18: 1000000 INFO @ Fri, 26 Jun 2020 08:40:21: 7000000 INFO @ Fri, 26 Jun 2020 08:40:23: #1 tag size is determined as 44 bps INFO @ Fri, 26 Jun 2020 08:40:23: #1 tag size = 44 INFO @ Fri, 26 Jun 2020 08:40:23: #1 total tags in treatment: 11979469 INFO @ Fri, 26 Jun 2020 08:40:23: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:40:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:40:24: #1 tags after filtering in treatment: 11979469 INFO @ Fri, 26 Jun 2020 08:40:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:40:24: #1 finished! INFO @ Fri, 26 Jun 2020 08:40:24: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:40:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:40:24: #2 number of paired peaks: 54 WARNING @ Fri, 26 Jun 2020 08:40:24: Too few paired peaks (54) 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 @ Fri, 26 Jun 2020 08:40:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.05_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/SRX495220/SRX495220.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:40:25: 2000000 INFO @ Fri, 26 Jun 2020 08:40:26: 8000000 INFO @ Fri, 26 Jun 2020 08:40:31: 3000000 INFO @ Fri, 26 Jun 2020 08:40:32: 9000000 INFO @ Fri, 26 Jun 2020 08:40:37: 10000000 INFO @ Fri, 26 Jun 2020 08:40:37: 4000000 INFO @ Fri, 26 Jun 2020 08:40:43: 11000000 INFO @ Fri, 26 Jun 2020 08:40:43: 5000000 INFO @ Fri, 26 Jun 2020 08:40:48: #1 tag size is determined as 44 bps INFO @ Fri, 26 Jun 2020 08:40:48: #1 tag size = 44 INFO @ Fri, 26 Jun 2020 08:40:48: #1 total tags in treatment: 11979469 INFO @ Fri, 26 Jun 2020 08:40:48: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:40:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:40:48: #1 tags after filtering in treatment: 11979469 INFO @ Fri, 26 Jun 2020 08:40:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:40:48: #1 finished! INFO @ Fri, 26 Jun 2020 08:40:48: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:40:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:40:49: 6000000 INFO @ Fri, 26 Jun 2020 08:40:49: #2 number of paired peaks: 54 WARNING @ Fri, 26 Jun 2020 08:40:49: Too few paired peaks (54) 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 @ Fri, 26 Jun 2020 08:40:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.10_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/SRX495220/SRX495220.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:40:54: 7000000 INFO @ Fri, 26 Jun 2020 08:40:59: 8000000 INFO @ Fri, 26 Jun 2020 08:41:04: 9000000 INFO @ Fri, 26 Jun 2020 08:41:10: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 08:41:15: 11000000 INFO @ Fri, 26 Jun 2020 08:41:20: #1 tag size is determined as 44 bps INFO @ Fri, 26 Jun 2020 08:41:20: #1 tag size = 44 INFO @ Fri, 26 Jun 2020 08:41:20: #1 total tags in treatment: 11979469 INFO @ Fri, 26 Jun 2020 08:41:20: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:41:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:41:20: #1 tags after filtering in treatment: 11979469 INFO @ Fri, 26 Jun 2020 08:41:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:41:20: #1 finished! INFO @ Fri, 26 Jun 2020 08:41:20: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:41:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:41:21: #2 number of paired peaks: 54 WARNING @ Fri, 26 Jun 2020 08:41:21: Too few paired peaks (54) 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 @ Fri, 26 Jun 2020 08:41:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.20_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/SRX495220/SRX495220.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495220/SRX495220.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。