Job ID = 6527533 SRX = SRX104979 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:41:46 prefetch.2.10.7: 1) Downloading 'SRR363423'... 2020-06-29T12:41:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:12 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:13 prefetch.2.10.7: 'SRR363423' is valid 2020-06-29T12:43:13 prefetch.2.10.7: 1) 'SRR363423' was downloaded successfully Read 23213423 spots for SRR363423/SRR363423.sra Written 23213423 spots for SRR363423/SRR363423.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: 00:06:57 23213423 reads; of these: 23213423 (100.00%) were unpaired; of these: 655290 (2.82%) aligned 0 times 17904244 (77.13%) aligned exactly 1 time 4653889 (20.05%) aligned >1 times 97.18% overall alignment rate Time searching: 00:06:57 Overall time: 00:06:57 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] 3849158 / 22558133 = 0.1706 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 22:02:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.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 22:02:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:02:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:02:08: 1000000 INFO @ Mon, 29 Jun 2020 22:02:14: 2000000 INFO @ Mon, 29 Jun 2020 22:02:19: 3000000 INFO @ Mon, 29 Jun 2020 22:02:25: 4000000 INFO @ Mon, 29 Jun 2020 22:02:30: 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 22:02:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.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 22:02:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:02:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:02:36: 6000000 INFO @ Mon, 29 Jun 2020 22:02:39: 1000000 INFO @ Mon, 29 Jun 2020 22:02:42: 7000000 INFO @ Mon, 29 Jun 2020 22:02:44: 2000000 INFO @ Mon, 29 Jun 2020 22:02:48: 8000000 INFO @ Mon, 29 Jun 2020 22:02:50: 3000000 INFO @ Mon, 29 Jun 2020 22:02:53: 9000000 INFO @ Mon, 29 Jun 2020 22:02:56: 4000000 INFO @ Mon, 29 Jun 2020 22:02:59: 10000000 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 22:03:02: 5000000 INFO @ Mon, 29 Jun 2020 22:03:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.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 22:03:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:03:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:03:05: 11000000 INFO @ Mon, 29 Jun 2020 22:03:08: 6000000 INFO @ Mon, 29 Jun 2020 22:03:09: 1000000 INFO @ Mon, 29 Jun 2020 22:03:12: 12000000 INFO @ Mon, 29 Jun 2020 22:03:14: 7000000 INFO @ Mon, 29 Jun 2020 22:03:15: 2000000 INFO @ Mon, 29 Jun 2020 22:03:19: 13000000 INFO @ Mon, 29 Jun 2020 22:03:20: 8000000 INFO @ Mon, 29 Jun 2020 22:03:21: 3000000 INFO @ Mon, 29 Jun 2020 22:03:25: 14000000 INFO @ Mon, 29 Jun 2020 22:03:26: 9000000 INFO @ Mon, 29 Jun 2020 22:03:27: 4000000 INFO @ Mon, 29 Jun 2020 22:03:31: 15000000 INFO @ Mon, 29 Jun 2020 22:03:32: 10000000 INFO @ Mon, 29 Jun 2020 22:03:33: 5000000 INFO @ Mon, 29 Jun 2020 22:03:37: 16000000 INFO @ Mon, 29 Jun 2020 22:03:38: 11000000 INFO @ Mon, 29 Jun 2020 22:03:39: 6000000 INFO @ Mon, 29 Jun 2020 22:03:43: 17000000 INFO @ Mon, 29 Jun 2020 22:03:45: 12000000 INFO @ Mon, 29 Jun 2020 22:03:46: 7000000 INFO @ Mon, 29 Jun 2020 22:03:49: 18000000 INFO @ Mon, 29 Jun 2020 22:03:52: 13000000 INFO @ Mon, 29 Jun 2020 22:03:52: 8000000 INFO @ Mon, 29 Jun 2020 22:03:54: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:03:54: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:03:54: #1 total tags in treatment: 18708975 INFO @ Mon, 29 Jun 2020 22:03:54: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:03:54: #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 22:03:54: #1 tags after filtering in treatment: 18708975 INFO @ Mon, 29 Jun 2020 22:03:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:03:54: #1 finished! INFO @ Mon, 29 Jun 2020 22:03:54: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:03:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:03:55: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 22:03:55: Too few paired peaks (26) 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 22:03:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.05_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/SRX104979/SRX104979.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:03:58: 14000000 INFO @ Mon, 29 Jun 2020 22:03:58: 9000000 INFO @ Mon, 29 Jun 2020 22:04:03: 15000000 INFO @ Mon, 29 Jun 2020 22:04:04: 10000000 INFO @ Mon, 29 Jun 2020 22:04:09: 16000000 INFO @ Mon, 29 Jun 2020 22:04:10: 11000000 INFO @ Mon, 29 Jun 2020 22:04:15: 17000000 INFO @ Mon, 29 Jun 2020 22:04:15: 12000000 INFO @ Mon, 29 Jun 2020 22:04:21: 18000000 INFO @ Mon, 29 Jun 2020 22:04:21: 13000000 INFO @ Mon, 29 Jun 2020 22:04:25: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:04:25: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:04:25: #1 total tags in treatment: 18708975 INFO @ Mon, 29 Jun 2020 22:04:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:04:25: #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 22:04:26: #1 tags after filtering in treatment: 18708975 INFO @ Mon, 29 Jun 2020 22:04:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:04:26: #1 finished! INFO @ Mon, 29 Jun 2020 22:04:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:04:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:04:27: 14000000 INFO @ Mon, 29 Jun 2020 22:04:27: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 22:04:27: Too few paired peaks (26) 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 22:04:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.10_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/SRX104979/SRX104979.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:04:32: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:04:38: 16000000 INFO @ Mon, 29 Jun 2020 22:04:43: 17000000 INFO @ Mon, 29 Jun 2020 22:04:49: 18000000 INFO @ Mon, 29 Jun 2020 22:04:53: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:04:53: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:04:53: #1 total tags in treatment: 18708975 INFO @ Mon, 29 Jun 2020 22:04:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:04:53: #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 22:04:53: #1 tags after filtering in treatment: 18708975 INFO @ Mon, 29 Jun 2020 22:04:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:04:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:04:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:04:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:04:55: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 22:04:55: Too few paired peaks (26) 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 22:04:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.20_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/SRX104979/SRX104979.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX104979/SRX104979.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。