Job ID = 6528257 SRX = SRX495209 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:46:13 prefetch.2.10.7: 1) Downloading 'SRR1198714'... 2020-06-29T14:46:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:47:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:47:40 prefetch.2.10.7: 'SRR1198714' is valid 2020-06-29T14:47:40 prefetch.2.10.7: 1) 'SRR1198714' was downloaded successfully Read 17232507 spots for SRR1198714/SRR1198714.sra Written 17232507 spots for SRR1198714/SRR1198714.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: 00:05:10 17232507 reads; of these: 17232507 (100.00%) were unpaired; of these: 207573 (1.20%) aligned 0 times 12449039 (72.24%) aligned exactly 1 time 4575895 (26.55%) aligned >1 times 98.80% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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] 3297819 / 17024934 = 0.1937 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 00:01:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.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 00:01:22: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:01:22: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:01:27: 1000000 INFO @ Tue, 30 Jun 2020 00:01:32: 2000000 INFO @ Tue, 30 Jun 2020 00:01:38: 3000000 INFO @ Tue, 30 Jun 2020 00:01:43: 4000000 INFO @ Tue, 30 Jun 2020 00:01:48: 5000000 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 00:01:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.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 00:01:52: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:01:52: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:01:53: 6000000 INFO @ Tue, 30 Jun 2020 00:01:57: 1000000 INFO @ Tue, 30 Jun 2020 00:01:58: 7000000 INFO @ Tue, 30 Jun 2020 00:02:02: 2000000 INFO @ Tue, 30 Jun 2020 00:02:03: 8000000 INFO @ Tue, 30 Jun 2020 00:02:07: 3000000 INFO @ Tue, 30 Jun 2020 00:02:09: 9000000 INFO @ Tue, 30 Jun 2020 00:02:11: 4000000 INFO @ Tue, 30 Jun 2020 00:02:14: 10000000 INFO @ Tue, 30 Jun 2020 00:02:16: 5000000 INFO @ Tue, 30 Jun 2020 00:02:19: 11000000 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 00:02:21: 6000000 INFO @ Tue, 30 Jun 2020 00:02:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.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 00:02:22: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:02:22: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:02:24: 12000000 INFO @ Tue, 30 Jun 2020 00:02:25: 7000000 INFO @ Tue, 30 Jun 2020 00:02:27: 1000000 INFO @ Tue, 30 Jun 2020 00:02:30: 13000000 INFO @ Tue, 30 Jun 2020 00:02:30: 8000000 INFO @ Tue, 30 Jun 2020 00:02:32: 2000000 INFO @ Tue, 30 Jun 2020 00:02:34: #1 tag size is determined as 44 bps INFO @ Tue, 30 Jun 2020 00:02:34: #1 tag size = 44 INFO @ Tue, 30 Jun 2020 00:02:34: #1 total tags in treatment: 13727115 INFO @ Tue, 30 Jun 2020 00:02:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:02:34: #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 00:02:34: #1 tags after filtering in treatment: 13727115 INFO @ Tue, 30 Jun 2020 00:02:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:02:34: #1 finished! INFO @ Tue, 30 Jun 2020 00:02:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:02:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:02:34: 9000000 INFO @ Tue, 30 Jun 2020 00:02:35: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:02:35: 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 @ Tue, 30 Jun 2020 00:02:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.05_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/SRX495209/SRX495209.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:02:36: 3000000 INFO @ Tue, 30 Jun 2020 00:02:39: 10000000 INFO @ Tue, 30 Jun 2020 00:02:41: 4000000 INFO @ Tue, 30 Jun 2020 00:02:44: 11000000 INFO @ Tue, 30 Jun 2020 00:02:46: 5000000 INFO @ Tue, 30 Jun 2020 00:02:48: 12000000 INFO @ Tue, 30 Jun 2020 00:02:50: 6000000 INFO @ Tue, 30 Jun 2020 00:02:53: 13000000 INFO @ Tue, 30 Jun 2020 00:02:55: 7000000 INFO @ Tue, 30 Jun 2020 00:02:56: #1 tag size is determined as 44 bps INFO @ Tue, 30 Jun 2020 00:02:56: #1 tag size = 44 INFO @ Tue, 30 Jun 2020 00:02:56: #1 total tags in treatment: 13727115 INFO @ Tue, 30 Jun 2020 00:02:56: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:02:56: #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 00:02:57: #1 tags after filtering in treatment: 13727115 INFO @ Tue, 30 Jun 2020 00:02:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:02:57: #1 finished! INFO @ Tue, 30 Jun 2020 00:02:57: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:02:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:02:58: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:02:58: 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 @ Tue, 30 Jun 2020 00:02:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.10_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/SRX495209/SRX495209.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:02:59: 8000000 INFO @ Tue, 30 Jun 2020 00:03:04: 9000000 INFO @ Tue, 30 Jun 2020 00:03:08: 10000000 INFO @ Tue, 30 Jun 2020 00:03:13: 11000000 INFO @ Tue, 30 Jun 2020 00:03:18: 12000000 INFO @ Tue, 30 Jun 2020 00:03:22: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:03:26: #1 tag size is determined as 44 bps INFO @ Tue, 30 Jun 2020 00:03:26: #1 tag size = 44 INFO @ Tue, 30 Jun 2020 00:03:26: #1 total tags in treatment: 13727115 INFO @ Tue, 30 Jun 2020 00:03:26: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:03:26: #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 00:03:26: #1 tags after filtering in treatment: 13727115 INFO @ Tue, 30 Jun 2020 00:03:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:03:26: #1 finished! INFO @ Tue, 30 Jun 2020 00:03:26: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:03:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:03:27: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:03:27: 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 @ Tue, 30 Jun 2020 00:03:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.20_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/SRX495209/SRX495209.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495209/SRX495209.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。