Job ID = 6528166 SRX = SRX4933882 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:30:22 prefetch.2.10.7: 1) Downloading 'SRR8107272'... 2020-06-29T14:30:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:33:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:33:18 prefetch.2.10.7: 'SRR8107272' is valid 2020-06-29T14:33:18 prefetch.2.10.7: 1) 'SRR8107272' was downloaded successfully Read 12481812 spots for SRR8107272/SRR8107272.sra Written 12481812 spots for SRR8107272/SRR8107272.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:48 12481812 reads; of these: 12481812 (100.00%) were unpaired; of these: 361031 (2.89%) aligned 0 times 8049943 (64.49%) aligned exactly 1 time 4070838 (32.61%) aligned >1 times 97.11% overall alignment rate Time searching: 00:04:49 Overall time: 00:04:49 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] 953797 / 12120781 = 0.0787 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 23:45:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.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 23:45:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:09: 1000000 INFO @ Mon, 29 Jun 2020 23:45:15: 2000000 INFO @ Mon, 29 Jun 2020 23:45:21: 3000000 INFO @ Mon, 29 Jun 2020 23:45:27: 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 23:45:32: 5000000 INFO @ Mon, 29 Jun 2020 23:45:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.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 23:45:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:39: 6000000 INFO @ Mon, 29 Jun 2020 23:45:40: 1000000 INFO @ Mon, 29 Jun 2020 23:45:46: 7000000 INFO @ Mon, 29 Jun 2020 23:45:48: 2000000 INFO @ Mon, 29 Jun 2020 23:45:53: 8000000 INFO @ Mon, 29 Jun 2020 23:45:56: 3000000 INFO @ Mon, 29 Jun 2020 23:46:00: 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 23:46:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.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 23:46:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:46:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:46:03: 4000000 INFO @ Mon, 29 Jun 2020 23:46:07: 10000000 INFO @ Mon, 29 Jun 2020 23:46:10: 1000000 INFO @ Mon, 29 Jun 2020 23:46:11: 5000000 INFO @ Mon, 29 Jun 2020 23:46:14: 11000000 INFO @ Mon, 29 Jun 2020 23:46:15: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:46:15: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:46:15: #1 total tags in treatment: 11166984 INFO @ Mon, 29 Jun 2020 23:46:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:15: #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 23:46:15: #1 tags after filtering in treatment: 11166984 INFO @ Mon, 29 Jun 2020 23:46:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:15: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:16: #2 number of paired peaks: 11 WARNING @ Mon, 29 Jun 2020 23:46:16: Too few paired peaks (11) 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 23:46:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.05_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/SRX4933882/SRX4933882.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:18: 2000000 INFO @ Mon, 29 Jun 2020 23:46:18: 6000000 INFO @ Mon, 29 Jun 2020 23:46:25: 3000000 INFO @ Mon, 29 Jun 2020 23:46:26: 7000000 INFO @ Mon, 29 Jun 2020 23:46:32: 4000000 INFO @ Mon, 29 Jun 2020 23:46:33: 8000000 INFO @ Mon, 29 Jun 2020 23:46:39: 5000000 INFO @ Mon, 29 Jun 2020 23:46:41: 9000000 INFO @ Mon, 29 Jun 2020 23:46:46: 6000000 INFO @ Mon, 29 Jun 2020 23:46:48: 10000000 INFO @ Mon, 29 Jun 2020 23:46:52: 7000000 INFO @ Mon, 29 Jun 2020 23:46:56: 11000000 INFO @ Mon, 29 Jun 2020 23:46:57: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:46:57: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:46:57: #1 total tags in treatment: 11166984 INFO @ Mon, 29 Jun 2020 23:46:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:57: #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 23:46:57: #1 tags after filtering in treatment: 11166984 INFO @ Mon, 29 Jun 2020 23:46:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:57: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:58: #2 number of paired peaks: 11 WARNING @ Mon, 29 Jun 2020 23:46:58: Too few paired peaks (11) 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 23:46:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.10_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/SRX4933882/SRX4933882.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:59: 8000000 INFO @ Mon, 29 Jun 2020 23:47:05: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:47:11: 10000000 INFO @ Mon, 29 Jun 2020 23:47:18: 11000000 INFO @ Mon, 29 Jun 2020 23:47:19: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:47:19: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:47:19: #1 total tags in treatment: 11166984 INFO @ Mon, 29 Jun 2020 23:47:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:19: #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 23:47:19: #1 tags after filtering in treatment: 11166984 INFO @ Mon, 29 Jun 2020 23:47:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:19: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:20: #2 number of paired peaks: 11 WARNING @ Mon, 29 Jun 2020 23:47:20: Too few paired peaks (11) 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 23:47:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.20_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/SRX4933882/SRX4933882.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933882/SRX4933882.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。