Job ID = 6528202 SRX = SRX4933887 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:47:13 prefetch.2.10.7: 1) Downloading 'SRR8107277'... 2020-06-29T14:47:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:48:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:48:32 prefetch.2.10.7: 'SRR8107277' is valid 2020-06-29T14:48:32 prefetch.2.10.7: 1) 'SRR8107277' was downloaded successfully Read 10269012 spots for SRR8107277/SRR8107277.sra Written 10269012 spots for SRR8107277/SRR8107277.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: 00:03:55 10269012 reads; of these: 10269012 (100.00%) were unpaired; of these: 350522 (3.41%) aligned 0 times 6711269 (65.35%) aligned exactly 1 time 3207221 (31.23%) aligned >1 times 96.59% overall alignment rate Time searching: 00:03:55 Overall time: 00:03:55 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] 963482 / 9918490 = 0.0971 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 23:58:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.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 23:58:10: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:58:10: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:58:18: 1000000 INFO @ Mon, 29 Jun 2020 23:58:25: 2000000 INFO @ Mon, 29 Jun 2020 23:58:32: 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 23:58:39: 4000000 INFO @ Mon, 29 Jun 2020 23:58:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.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 23:58:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:58:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:58:47: 5000000 INFO @ Mon, 29 Jun 2020 23:58:47: 1000000 INFO @ Mon, 29 Jun 2020 23:58:55: 6000000 INFO @ Mon, 29 Jun 2020 23:58:55: 2000000 INFO @ Mon, 29 Jun 2020 23:59:02: 3000000 INFO @ Mon, 29 Jun 2020 23:59:02: 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 23:59:09: 4000000 INFO @ Mon, 29 Jun 2020 23:59:10: 8000000 INFO @ Mon, 29 Jun 2020 23:59:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.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 23:59:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:59:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:59:17: 5000000 INFO @ Mon, 29 Jun 2020 23:59:18: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:59:18: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:59:18: #1 total tags in treatment: 8955008 INFO @ Mon, 29 Jun 2020 23:59:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:18: #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 23:59:18: #1 tags after filtering in treatment: 8955008 INFO @ Mon, 29 Jun 2020 23:59:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:59:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:59:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:59:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:59:18: 1000000 INFO @ Mon, 29 Jun 2020 23:59:19: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 23:59:19: Too few paired peaks (15) 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 23:59:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.05_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/SRX4933887/SRX4933887.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:59:24: 6000000 INFO @ Mon, 29 Jun 2020 23:59:25: 2000000 INFO @ Mon, 29 Jun 2020 23:59:31: 7000000 INFO @ Mon, 29 Jun 2020 23:59:33: 3000000 INFO @ Mon, 29 Jun 2020 23:59:38: 8000000 INFO @ Mon, 29 Jun 2020 23:59:40: 4000000 INFO @ Mon, 29 Jun 2020 23:59:44: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:59:44: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:59:44: #1 total tags in treatment: 8955008 INFO @ Mon, 29 Jun 2020 23:59:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:44: #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 23:59:44: #1 tags after filtering in treatment: 8955008 INFO @ Mon, 29 Jun 2020 23:59:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:59:44: #1 finished! INFO @ Mon, 29 Jun 2020 23:59:44: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:59:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:59:45: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 23:59:45: Too few paired peaks (15) 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 23:59:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.10_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/SRX4933887/SRX4933887.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:59:47: 5000000 INFO @ Mon, 29 Jun 2020 23:59:53: 6000000 INFO @ Tue, 30 Jun 2020 00:00:00: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:00:06: 8000000 INFO @ Tue, 30 Jun 2020 00:00:12: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:00:12: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:00:12: #1 total tags in treatment: 8955008 INFO @ Tue, 30 Jun 2020 00:00:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:00:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:00:12: #1 tags after filtering in treatment: 8955008 INFO @ Tue, 30 Jun 2020 00:00:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:00:12: #1 finished! INFO @ Tue, 30 Jun 2020 00:00:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:00:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:00:13: #2 number of paired peaks: 15 WARNING @ Tue, 30 Jun 2020 00:00:13: Too few paired peaks (15) 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 @ Tue, 30 Jun 2020 00:00:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.20_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/SRX4933887/SRX4933887.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933887/SRX4933887.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。