Job ID = 6527520 SRX = SRX066249 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:59:39 prefetch.2.10.7: 1) Downloading 'SRR222080'... 2020-06-29T12:59:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:00:37 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:00:37 prefetch.2.10.7: 'SRR222080' is valid 2020-06-29T13:00:37 prefetch.2.10.7: 1) 'SRR222080' was downloaded successfully Read 17005841 spots for SRR222080/SRR222080.sra Written 17005841 spots for SRR222080/SRR222080.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: 00:05:01 17005841 reads; of these: 17005841 (100.00%) were unpaired; of these: 477054 (2.81%) aligned 0 times 12546125 (73.78%) aligned exactly 1 time 3982662 (23.42%) aligned >1 times 97.19% overall alignment rate Time searching: 00:05:01 Overall time: 00:05:01 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] 2220163 / 16528787 = 0.1343 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 22:12:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.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 22:12:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:12:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:12:55: 1000000 INFO @ Mon, 29 Jun 2020 22:13:00: 2000000 INFO @ Mon, 29 Jun 2020 22:13:04: 3000000 INFO @ Mon, 29 Jun 2020 22:13:09: 4000000 INFO @ Mon, 29 Jun 2020 22:13:14: 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 22:13:19: 6000000 INFO @ Mon, 29 Jun 2020 22:13:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.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 22:13:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:13:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:13:24: 7000000 INFO @ Mon, 29 Jun 2020 22:13:25: 1000000 INFO @ Mon, 29 Jun 2020 22:13:29: 8000000 INFO @ Mon, 29 Jun 2020 22:13:30: 2000000 INFO @ Mon, 29 Jun 2020 22:13:33: 9000000 INFO @ Mon, 29 Jun 2020 22:13:35: 3000000 INFO @ Mon, 29 Jun 2020 22:13:38: 10000000 INFO @ Mon, 29 Jun 2020 22:13:40: 4000000 INFO @ Mon, 29 Jun 2020 22:13:43: 11000000 INFO @ Mon, 29 Jun 2020 22:13:44: 5000000 BedGraph に変換中... INFO @ Mon, 29 Jun 2020 22:13:48: 12000000 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 22:13:49: 6000000 INFO @ Mon, 29 Jun 2020 22:13:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.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 22:13:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:13:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:13:53: 13000000 INFO @ Mon, 29 Jun 2020 22:13:54: 7000000 INFO @ Mon, 29 Jun 2020 22:13:55: 1000000 INFO @ Mon, 29 Jun 2020 22:13:57: 14000000 INFO @ Mon, 29 Jun 2020 22:13:59: 8000000 INFO @ Mon, 29 Jun 2020 22:13:59: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:13:59: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:13:59: #1 total tags in treatment: 14308624 INFO @ Mon, 29 Jun 2020 22:13:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:13:59: #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 22:13:59: #1 tags after filtering in treatment: 14308624 INFO @ Mon, 29 Jun 2020 22:13:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:13:59: #1 finished! INFO @ Mon, 29 Jun 2020 22:13:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:13:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:14:00: 2000000 INFO @ Mon, 29 Jun 2020 22:14:00: #2 number of paired peaks: 58 WARNING @ Mon, 29 Jun 2020 22:14:00: Too few paired peaks (58) 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 22:14:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.05_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/SRX066249/SRX066249.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:14:04: 9000000 INFO @ Mon, 29 Jun 2020 22:14:04: 3000000 INFO @ Mon, 29 Jun 2020 22:14:08: 10000000 INFO @ Mon, 29 Jun 2020 22:14:09: 4000000 INFO @ Mon, 29 Jun 2020 22:14:13: 11000000 INFO @ Mon, 29 Jun 2020 22:14:14: 5000000 INFO @ Mon, 29 Jun 2020 22:14:18: 12000000 INFO @ Mon, 29 Jun 2020 22:14:19: 6000000 INFO @ Mon, 29 Jun 2020 22:14:22: 13000000 INFO @ Mon, 29 Jun 2020 22:14:24: 7000000 INFO @ Mon, 29 Jun 2020 22:14:27: 14000000 INFO @ Mon, 29 Jun 2020 22:14:28: 8000000 INFO @ Mon, 29 Jun 2020 22:14:29: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:14:29: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:14:29: #1 total tags in treatment: 14308624 INFO @ Mon, 29 Jun 2020 22:14:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:14:29: #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 22:14:29: #1 tags after filtering in treatment: 14308624 INFO @ Mon, 29 Jun 2020 22:14:29: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:14:29: #1 finished! INFO @ Mon, 29 Jun 2020 22:14:29: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:14:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:14:30: #2 number of paired peaks: 58 WARNING @ Mon, 29 Jun 2020 22:14:30: Too few paired peaks (58) 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 22:14:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.10_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/SRX066249/SRX066249.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:14:33: 9000000 INFO @ Mon, 29 Jun 2020 22:14:38: 10000000 INFO @ Mon, 29 Jun 2020 22:14:42: 11000000 INFO @ Mon, 29 Jun 2020 22:14:47: 12000000 INFO @ Mon, 29 Jun 2020 22:14:52: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:14:57: 14000000 INFO @ Mon, 29 Jun 2020 22:14:58: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:14:58: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:14:58: #1 total tags in treatment: 14308624 INFO @ Mon, 29 Jun 2020 22:14:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:14:58: #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 22:14:58: #1 tags after filtering in treatment: 14308624 INFO @ Mon, 29 Jun 2020 22:14:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:14:58: #1 finished! INFO @ Mon, 29 Jun 2020 22:14:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:14:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:14:59: #2 number of paired peaks: 58 WARNING @ Mon, 29 Jun 2020 22:14:59: Too few paired peaks (58) 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 22:14:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.20_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/SRX066249/SRX066249.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX066249/SRX066249.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。