Job ID = 6527558 SRX = SRX110799 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:27:07 prefetch.2.10.7: 1) Downloading 'SRR388381'... 2020-06-29T12:27:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:29:12 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:29:13 prefetch.2.10.7: 'SRR388381' is valid 2020-06-29T12:29:13 prefetch.2.10.7: 1) 'SRR388381' was downloaded successfully Read 15296723 spots for SRR388381/SRR388381.sra Written 15296723 spots for SRR388381/SRR388381.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: 00:03:52 15296723 reads; of these: 15296723 (100.00%) were unpaired; of these: 678479 (4.44%) aligned 0 times 11120216 (72.70%) aligned exactly 1 time 3498028 (22.87%) aligned >1 times 95.56% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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_rmdupse_core] 609340 / 14618244 = 0.0417 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 21:43:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.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 21:43:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:43:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:43:15: 1000000 INFO @ Mon, 29 Jun 2020 21:43:22: 2000000 INFO @ Mon, 29 Jun 2020 21:43:27: 3000000 INFO @ Mon, 29 Jun 2020 21:43:33: 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 21:43:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.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 21:43:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:43:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:43:39: 5000000 INFO @ Mon, 29 Jun 2020 21:43:45: 1000000 INFO @ Mon, 29 Jun 2020 21:43:45: 6000000 INFO @ Mon, 29 Jun 2020 21:43:51: 2000000 INFO @ Mon, 29 Jun 2020 21:43:51: 7000000 INFO @ Mon, 29 Jun 2020 21:43:57: 3000000 INFO @ Mon, 29 Jun 2020 21:43:57: 8000000 INFO @ Mon, 29 Jun 2020 21:44:03: 4000000 INFO @ Mon, 29 Jun 2020 21:44:03: 9000000 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 21:44:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.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 21:44:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:44:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:44:09: 5000000 INFO @ Mon, 29 Jun 2020 21:44:09: 10000000 INFO @ Mon, 29 Jun 2020 21:44:15: 6000000 INFO @ Mon, 29 Jun 2020 21:44:15: 1000000 INFO @ Mon, 29 Jun 2020 21:44:16: 11000000 INFO @ Mon, 29 Jun 2020 21:44:21: 7000000 INFO @ Mon, 29 Jun 2020 21:44:22: 2000000 INFO @ Mon, 29 Jun 2020 21:44:23: 12000000 INFO @ Mon, 29 Jun 2020 21:44:28: 8000000 INFO @ Mon, 29 Jun 2020 21:44:29: 3000000 INFO @ Mon, 29 Jun 2020 21:44:30: 13000000 INFO @ Mon, 29 Jun 2020 21:44:34: 9000000 INFO @ Mon, 29 Jun 2020 21:44:35: 4000000 INFO @ Mon, 29 Jun 2020 21:44:36: 14000000 INFO @ Mon, 29 Jun 2020 21:44:37: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:44:37: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:44:37: #1 total tags in treatment: 14008904 INFO @ Mon, 29 Jun 2020 21:44:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:44:37: #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 21:44:37: #1 tags after filtering in treatment: 14008904 INFO @ Mon, 29 Jun 2020 21:44:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:44:37: #1 finished! INFO @ Mon, 29 Jun 2020 21:44:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:44:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:44:38: #2 number of paired peaks: 18 WARNING @ Mon, 29 Jun 2020 21:44:38: Too few paired peaks (18) 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 21:44:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.05_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/SRX110799/SRX110799.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:44:40: 10000000 INFO @ Mon, 29 Jun 2020 21:44:41: 5000000 INFO @ Mon, 29 Jun 2020 21:44:46: 11000000 INFO @ Mon, 29 Jun 2020 21:44:48: 6000000 INFO @ Mon, 29 Jun 2020 21:44:52: 12000000 INFO @ Mon, 29 Jun 2020 21:44:54: 7000000 INFO @ Mon, 29 Jun 2020 21:44:58: 13000000 INFO @ Mon, 29 Jun 2020 21:44:59: 8000000 INFO @ Mon, 29 Jun 2020 21:45:04: 14000000 INFO @ Mon, 29 Jun 2020 21:45:04: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:45:04: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:45:04: #1 total tags in treatment: 14008904 INFO @ Mon, 29 Jun 2020 21:45:04: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:45:04: #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 21:45:04: #1 tags after filtering in treatment: 14008904 INFO @ Mon, 29 Jun 2020 21:45:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:45:04: #1 finished! INFO @ Mon, 29 Jun 2020 21:45:04: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:45:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:45:05: #2 number of paired peaks: 18 WARNING @ Mon, 29 Jun 2020 21:45:05: Too few paired peaks (18) 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 21:45:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.10_peaks.narrowPeak: No such file or directory INFO @ Mon, 29 Jun 2020 21:45:05: 9000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:45:11: 10000000 INFO @ Mon, 29 Jun 2020 21:45:17: 11000000 INFO @ Mon, 29 Jun 2020 21:45:23: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:45:28: 13000000 INFO @ Mon, 29 Jun 2020 21:45:34: 14000000 INFO @ Mon, 29 Jun 2020 21:45:34: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:45:34: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:45:34: #1 total tags in treatment: 14008904 INFO @ Mon, 29 Jun 2020 21:45:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:45:34: #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 21:45:35: #1 tags after filtering in treatment: 14008904 INFO @ Mon, 29 Jun 2020 21:45:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:45:35: #1 finished! INFO @ Mon, 29 Jun 2020 21:45:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:45:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:45:35: #2 number of paired peaks: 18 WARNING @ Mon, 29 Jun 2020 21:45:35: Too few paired peaks (18) 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 21:45:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.20_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/SRX110799/SRX110799.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110799/SRX110799.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。