Job ID = 6527566 SRX = SRX111782 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:55:43 prefetch.2.10.7: 1) Downloading 'SRR390228'... 2020-06-29T12:55:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:52 prefetch.2.10.7: 'SRR390228' is valid 2020-06-29T12:57:52 prefetch.2.10.7: 1) 'SRR390228' was downloaded successfully Read 17232507 spots for SRR390228/SRR390228.sra Written 17232507 spots for SRR390228/SRR390228.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: 00:05:08 17232507 reads; of these: 17232507 (100.00%) were unpaired; of these: 207533 (1.20%) aligned 0 times 12449005 (72.24%) aligned exactly 1 time 4575969 (26.55%) aligned >1 times 98.80% overall alignment rate Time searching: 00:05:08 Overall time: 00:05:08 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] 3297930 / 17024974 = 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 @ Mon, 29 Jun 2020 22:11:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.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 22:11:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:11:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:11:45: 1000000 INFO @ Mon, 29 Jun 2020 22:11:50: 2000000 INFO @ Mon, 29 Jun 2020 22:11:55: 3000000 INFO @ Mon, 29 Jun 2020 22:12:00: 4000000 INFO @ Mon, 29 Jun 2020 22:12:05: 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 @ Mon, 29 Jun 2020 22:12:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.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 22:12:10: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:12:10: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:12:10: 6000000 INFO @ Mon, 29 Jun 2020 22:12:15: 1000000 INFO @ Mon, 29 Jun 2020 22:12:15: 7000000 INFO @ Mon, 29 Jun 2020 22:12:20: 2000000 INFO @ Mon, 29 Jun 2020 22:12:20: 8000000 INFO @ Mon, 29 Jun 2020 22:12:25: 3000000 INFO @ Mon, 29 Jun 2020 22:12:25: 9000000 INFO @ Mon, 29 Jun 2020 22:12:31: 10000000 INFO @ Mon, 29 Jun 2020 22:12:31: 4000000 INFO @ Mon, 29 Jun 2020 22:12:36: 11000000 INFO @ Mon, 29 Jun 2020 22:12:36: 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 @ Mon, 29 Jun 2020 22:12:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.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 22:12:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:12:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:12:41: 12000000 INFO @ Mon, 29 Jun 2020 22:12:41: 6000000 INFO @ Mon, 29 Jun 2020 22:12:45: 1000000 INFO @ Mon, 29 Jun 2020 22:12:46: 13000000 INFO @ Mon, 29 Jun 2020 22:12:46: 7000000 INFO @ Mon, 29 Jun 2020 22:12:50: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:12:50: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:12:50: #1 total tags in treatment: 13727044 INFO @ Mon, 29 Jun 2020 22:12:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:12:50: #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 22:12:50: 2000000 INFO @ Mon, 29 Jun 2020 22:12:50: #1 tags after filtering in treatment: 13727044 INFO @ Mon, 29 Jun 2020 22:12:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:12:50: #1 finished! INFO @ Mon, 29 Jun 2020 22:12:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:12:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:12:51: #2 number of paired peaks: 57 WARNING @ Mon, 29 Jun 2020 22:12:51: Too few paired peaks (57) 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 22:12:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.05_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/SRX111782/SRX111782.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:12:52: 8000000 INFO @ Mon, 29 Jun 2020 22:12:55: 3000000 INFO @ Mon, 29 Jun 2020 22:12:57: 9000000 INFO @ Mon, 29 Jun 2020 22:13:01: 4000000 INFO @ Mon, 29 Jun 2020 22:13:02: 10000000 INFO @ Mon, 29 Jun 2020 22:13:06: 5000000 INFO @ Mon, 29 Jun 2020 22:13:07: 11000000 INFO @ Mon, 29 Jun 2020 22:13:11: 6000000 INFO @ Mon, 29 Jun 2020 22:13:12: 12000000 INFO @ Mon, 29 Jun 2020 22:13:16: 7000000 INFO @ Mon, 29 Jun 2020 22:13:18: 13000000 INFO @ Mon, 29 Jun 2020 22:13:21: 8000000 INFO @ Mon, 29 Jun 2020 22:13:22: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:13:22: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:13:22: #1 total tags in treatment: 13727044 INFO @ Mon, 29 Jun 2020 22:13:22: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:13:22: #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 22:13:22: #1 tags after filtering in treatment: 13727044 INFO @ Mon, 29 Jun 2020 22:13:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:13:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:13:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:13:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:13:23: #2 number of paired peaks: 57 WARNING @ Mon, 29 Jun 2020 22:13:23: Too few paired peaks (57) 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 22:13:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.10_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/SRX111782/SRX111782.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:13:26: 9000000 INFO @ Mon, 29 Jun 2020 22:13:31: 10000000 INFO @ Mon, 29 Jun 2020 22:13:36: 11000000 INFO @ Mon, 29 Jun 2020 22:13:41: 12000000 INFO @ Mon, 29 Jun 2020 22:13:46: 13000000 INFO @ Mon, 29 Jun 2020 22:13:50: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:13:50: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:13:50: #1 total tags in treatment: 13727044 INFO @ Mon, 29 Jun 2020 22:13:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:13:50: #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 22:13:50: #1 tags after filtering in treatment: 13727044 INFO @ Mon, 29 Jun 2020 22:13:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:13:50: #1 finished! INFO @ Mon, 29 Jun 2020 22:13:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:13:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:13:51: #2 number of paired peaks: 57 WARNING @ Mon, 29 Jun 2020 22:13:51: Too few paired peaks (57) 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 22:13:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.20_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/SRX111782/SRX111782.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111782/SRX111782.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。