Job ID = 6528201 SRX = SRX4933885 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:31:52 prefetch.2.10.7: 1) Downloading 'SRR8107275'... 2020-06-29T14:31:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:34:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:34:47 prefetch.2.10.7: 'SRR8107275' is valid 2020-06-29T14:34:47 prefetch.2.10.7: 1) 'SRR8107275' was downloaded successfully Read 12665263 spots for SRR8107275/SRR8107275.sra Written 12665263 spots for SRR8107275/SRR8107275.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: 00:03:56 12665263 reads; of these: 12665263 (100.00%) were unpaired; of these: 541622 (4.28%) aligned 0 times 9138237 (72.15%) aligned exactly 1 time 2985404 (23.57%) aligned >1 times 95.72% overall alignment rate Time searching: 00:03:56 Overall time: 00:03:56 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] 2430635 / 12123641 = 0.2005 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 23:45:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.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 23:45:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:31: 1000000 INFO @ Mon, 29 Jun 2020 23:45:37: 2000000 INFO @ Mon, 29 Jun 2020 23:45:43: 3000000 INFO @ Mon, 29 Jun 2020 23:45:49: 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 23:45:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.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 23:45:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:55: 5000000 INFO @ Mon, 29 Jun 2020 23:46:02: 1000000 INFO @ Mon, 29 Jun 2020 23:46:02: 6000000 INFO @ Mon, 29 Jun 2020 23:46:09: 2000000 INFO @ Mon, 29 Jun 2020 23:46:09: 7000000 INFO @ Mon, 29 Jun 2020 23:46:16: 3000000 INFO @ Mon, 29 Jun 2020 23:46:16: 8000000 INFO @ Mon, 29 Jun 2020 23:46:22: 4000000 INFO @ Mon, 29 Jun 2020 23:46:23: 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 23:46:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.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 23:46:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:46:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:46:27: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:46:27: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:46:27: #1 total tags in treatment: 9693006 INFO @ Mon, 29 Jun 2020 23:46:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:27: #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 23:46:28: #1 tags after filtering in treatment: 9693006 INFO @ Mon, 29 Jun 2020 23:46:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:28: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:28: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 23:46:28: Too few paired peaks (90) 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 23:46:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:29: 5000000 INFO @ Mon, 29 Jun 2020 23:46:32: 1000000 INFO @ Mon, 29 Jun 2020 23:46:37: 6000000 INFO @ Mon, 29 Jun 2020 23:46:39: 2000000 INFO @ Mon, 29 Jun 2020 23:46:44: 7000000 INFO @ Mon, 29 Jun 2020 23:46:46: 3000000 INFO @ Mon, 29 Jun 2020 23:46:51: 8000000 INFO @ Mon, 29 Jun 2020 23:46:53: 4000000 INFO @ Mon, 29 Jun 2020 23:46:58: 9000000 INFO @ Mon, 29 Jun 2020 23:47:00: 5000000 INFO @ Mon, 29 Jun 2020 23:47:03: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:47:03: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:47:03: #1 total tags in treatment: 9693006 INFO @ Mon, 29 Jun 2020 23:47:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:03: #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 23:47:03: #1 tags after filtering in treatment: 9693006 INFO @ Mon, 29 Jun 2020 23:47:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:03: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:03: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:04: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 23:47:04: Too few paired peaks (90) 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 23:47:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:47:07: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:47:14: 7000000 INFO @ Mon, 29 Jun 2020 23:47:21: 8000000 INFO @ Mon, 29 Jun 2020 23:47:28: 9000000 INFO @ Mon, 29 Jun 2020 23:47:33: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:47:33: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:47:33: #1 total tags in treatment: 9693006 INFO @ Mon, 29 Jun 2020 23:47:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:33: #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 23:47:33: #1 tags after filtering in treatment: 9693006 INFO @ Mon, 29 Jun 2020 23:47:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:33: #2 number of paired peaks: 90 WARNING @ Mon, 29 Jun 2020 23:47:33: Too few paired peaks (90) 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 23:47:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933885/SRX4933885.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。