Job ID = 6527901 SRX = SRX3159479 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:29:44 prefetch.2.10.7: 1) Downloading 'SRR6004209'... 2020-06-29T13:29:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:32:41 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:32:41 prefetch.2.10.7: 1) 'SRR6004209' was downloaded successfully 2020-06-29T13:32:41 prefetch.2.10.7: 'SRR6004209' has 0 unresolved dependencies Read 31503810 spots for SRR6004209/SRR6004209.sra Written 31503810 spots for SRR6004209/SRR6004209.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: 00:10:32 31503810 reads; of these: 31503810 (100.00%) were unpaired; of these: 4249377 (13.49%) aligned 0 times 19269146 (61.16%) aligned exactly 1 time 7985287 (25.35%) aligned >1 times 86.51% overall alignment rate Time searching: 00:10:32 Overall time: 00:10:32 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 12 files... [bam_rmdupse_core] 6914337 / 27254433 = 0.2537 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 23:01:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.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 23:01:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:01:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:01:55: 1000000 INFO @ Mon, 29 Jun 2020 23:02:04: 2000000 INFO @ Mon, 29 Jun 2020 23:02:12: 3000000 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 23:02:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.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 23:02:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:20: 4000000 INFO @ Mon, 29 Jun 2020 23:02:26: 1000000 INFO @ Mon, 29 Jun 2020 23:02:28: 5000000 INFO @ Mon, 29 Jun 2020 23:02:35: 2000000 INFO @ Mon, 29 Jun 2020 23:02:36: 6000000 INFO @ Mon, 29 Jun 2020 23:02:43: 3000000 INFO @ Mon, 29 Jun 2020 23:02:45: 7000000 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 23:02:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.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 23:02:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:51: 4000000 INFO @ Mon, 29 Jun 2020 23:02:54: 8000000 INFO @ Mon, 29 Jun 2020 23:02:55: 1000000 INFO @ Mon, 29 Jun 2020 23:02:58: 5000000 INFO @ Mon, 29 Jun 2020 23:03:02: 2000000 INFO @ Mon, 29 Jun 2020 23:03:03: 9000000 INFO @ Mon, 29 Jun 2020 23:03:06: 6000000 INFO @ Mon, 29 Jun 2020 23:03:10: 3000000 INFO @ Mon, 29 Jun 2020 23:03:11: 10000000 INFO @ Mon, 29 Jun 2020 23:03:13: 7000000 INFO @ Mon, 29 Jun 2020 23:03:17: 4000000 INFO @ Mon, 29 Jun 2020 23:03:19: 11000000 INFO @ Mon, 29 Jun 2020 23:03:20: 8000000 INFO @ Mon, 29 Jun 2020 23:03:24: 5000000 INFO @ Mon, 29 Jun 2020 23:03:27: 12000000 INFO @ Mon, 29 Jun 2020 23:03:27: 9000000 INFO @ Mon, 29 Jun 2020 23:03:31: 6000000 INFO @ Mon, 29 Jun 2020 23:03:34: 10000000 INFO @ Mon, 29 Jun 2020 23:03:34: 13000000 INFO @ Mon, 29 Jun 2020 23:03:38: 7000000 INFO @ Mon, 29 Jun 2020 23:03:41: 14000000 INFO @ Mon, 29 Jun 2020 23:03:41: 11000000 INFO @ Mon, 29 Jun 2020 23:03:44: 8000000 INFO @ Mon, 29 Jun 2020 23:03:48: 15000000 INFO @ Mon, 29 Jun 2020 23:03:48: 12000000 INFO @ Mon, 29 Jun 2020 23:03:51: 9000000 INFO @ Mon, 29 Jun 2020 23:03:55: 16000000 INFO @ Mon, 29 Jun 2020 23:03:55: 13000000 INFO @ Mon, 29 Jun 2020 23:03:58: 10000000 INFO @ Mon, 29 Jun 2020 23:04:01: 17000000 INFO @ Mon, 29 Jun 2020 23:04:01: 14000000 INFO @ Mon, 29 Jun 2020 23:04:05: 11000000 INFO @ Mon, 29 Jun 2020 23:04:08: 18000000 INFO @ Mon, 29 Jun 2020 23:04:08: 15000000 INFO @ Mon, 29 Jun 2020 23:04:12: 12000000 INFO @ Mon, 29 Jun 2020 23:04:15: 19000000 INFO @ Mon, 29 Jun 2020 23:04:15: 16000000 INFO @ Mon, 29 Jun 2020 23:04:18: 13000000 INFO @ Mon, 29 Jun 2020 23:04:21: 20000000 INFO @ Mon, 29 Jun 2020 23:04:22: 17000000 INFO @ Mon, 29 Jun 2020 23:04:23: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:04:23: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:04:23: #1 total tags in treatment: 20340096 INFO @ Mon, 29 Jun 2020 23:04:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:04:23: #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 23:04:24: #1 tags after filtering in treatment: 20340096 INFO @ Mon, 29 Jun 2020 23:04:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:04:24: #1 finished! INFO @ Mon, 29 Jun 2020 23:04:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:04:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:04:25: #2 number of paired peaks: 91 WARNING @ Mon, 29 Jun 2020 23:04:25: Too few paired peaks (91) 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 23:04:25: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 23:04:25: 14000000 cut: /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.05_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/SRX3159479/SRX3159479.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:04:29: 18000000 INFO @ Mon, 29 Jun 2020 23:04:31: 15000000 INFO @ Mon, 29 Jun 2020 23:04:35: 19000000 INFO @ Mon, 29 Jun 2020 23:04:37: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:04:42: 20000000 INFO @ Mon, 29 Jun 2020 23:04:43: 17000000 INFO @ Mon, 29 Jun 2020 23:04:44: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:04:44: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:04:44: #1 total tags in treatment: 20340096 INFO @ Mon, 29 Jun 2020 23:04:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:04:44: #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 23:04:45: #1 tags after filtering in treatment: 20340096 INFO @ Mon, 29 Jun 2020 23:04:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:04:45: #1 finished! INFO @ Mon, 29 Jun 2020 23:04:45: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:04:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:04:46: #2 number of paired peaks: 91 WARNING @ Mon, 29 Jun 2020 23:04:46: Too few paired peaks (91) 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 23:04:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.10_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/SRX3159479/SRX3159479.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:04:49: 18000000 INFO @ Mon, 29 Jun 2020 23:04:55: 19000000 INFO @ Mon, 29 Jun 2020 23:05:00: 20000000 INFO @ Mon, 29 Jun 2020 23:05:02: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:05:02: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:05:02: #1 total tags in treatment: 20340096 INFO @ Mon, 29 Jun 2020 23:05:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:02: #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 23:05:02: #1 tags after filtering in treatment: 20340096 INFO @ Mon, 29 Jun 2020 23:05:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:04: #2 number of paired peaks: 91 WARNING @ Mon, 29 Jun 2020 23:05:04: Too few paired peaks (91) 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 23:05:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.20_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/SRX3159479/SRX3159479.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159479/SRX3159479.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。