Job ID = 14519863 SRX = SRX8829413 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 25360617 spots for SRR12329193/SRR12329193.sra Written 25360617 spots for SRR12329193/SRR12329193.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: 00:13:49 25360617 reads; of these: 25360617 (100.00%) were paired; of these: 3141088 (12.39%) aligned concordantly 0 times 12339514 (48.66%) aligned concordantly exactly 1 time 9880015 (38.96%) aligned concordantly >1 times ---- 3141088 pairs aligned concordantly 0 times; of these: 170345 (5.42%) aligned discordantly 1 time ---- 2970743 pairs aligned 0 times concordantly or discordantly; of these: 5941486 mates make up the pairs; of these: 4155720 (69.94%) aligned 0 times 805525 (13.56%) aligned exactly 1 time 980241 (16.50%) aligned >1 times 91.81% overall alignment rate Time searching: 00:13:49 Overall time: 00:13:49 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 20 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 18040337 / 22341995 = 0.8075 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:17:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 18:17:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:17:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:17:28: 1000000 INFO @ Sat, 15 Jan 2022 18:17:33: 2000000 INFO @ Sat, 15 Jan 2022 18:17:38: 3000000 INFO @ Sat, 15 Jan 2022 18:17:43: 4000000 INFO @ Sat, 15 Jan 2022 18:17:48: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:17:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 18:17:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:17:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:17:54: 6000000 INFO @ Sat, 15 Jan 2022 18:17:58: 1000000 INFO @ Sat, 15 Jan 2022 18:17:59: 7000000 INFO @ Sat, 15 Jan 2022 18:18:04: 2000000 INFO @ Sat, 15 Jan 2022 18:18:04: 8000000 INFO @ Sat, 15 Jan 2022 18:18:09: 3000000 INFO @ Sat, 15 Jan 2022 18:18:09: 9000000 INFO @ Sat, 15 Jan 2022 18:18:14: 4000000 INFO @ Sat, 15 Jan 2022 18:18:15: 10000000 INFO @ Sat, 15 Jan 2022 18:18:17: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:18:17: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:18:17: #1 total tags in treatment: 4262769 INFO @ Sat, 15 Jan 2022 18:18:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:18:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:18:17: #1 tags after filtering in treatment: 2430186 INFO @ Sat, 15 Jan 2022 18:18:17: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 18:18:17: #1 finished! INFO @ Sat, 15 Jan 2022 18:18:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:18:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:18:18: #2 number of paired peaks: 39 WARNING @ Sat, 15 Jan 2022 18:18:18: Too few paired peaks (39) 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 @ Sat, 15 Jan 2022 18:18:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.05_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/sacCer3/SRX8829413/SRX8829413.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:18:20: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:18:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 18:18:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:18:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:18:25: 6000000 INFO @ Sat, 15 Jan 2022 18:18:29: 1000000 INFO @ Sat, 15 Jan 2022 18:18:31: 7000000 INFO @ Sat, 15 Jan 2022 18:18:35: 2000000 INFO @ Sat, 15 Jan 2022 18:18:38: 8000000 INFO @ Sat, 15 Jan 2022 18:18:41: 3000000 INFO @ Sat, 15 Jan 2022 18:18:44: 9000000 INFO @ Sat, 15 Jan 2022 18:18:47: 4000000 INFO @ Sat, 15 Jan 2022 18:18:50: 10000000 INFO @ Sat, 15 Jan 2022 18:18:53: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:18:53: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:18:53: #1 total tags in treatment: 4262769 INFO @ Sat, 15 Jan 2022 18:18:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:18:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:18:53: #1 tags after filtering in treatment: 2430186 INFO @ Sat, 15 Jan 2022 18:18:53: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 18:18:53: #1 finished! INFO @ Sat, 15 Jan 2022 18:18:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:18:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:18:53: #2 number of paired peaks: 39 WARNING @ Sat, 15 Jan 2022 18:18:53: Too few paired peaks (39) 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 @ Sat, 15 Jan 2022 18:18:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.10_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/sacCer3/SRX8829413/SRX8829413.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:18:53: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:18:59: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:19:04: 7000000 INFO @ Sat, 15 Jan 2022 18:19:10: 8000000 INFO @ Sat, 15 Jan 2022 18:19:15: 9000000 INFO @ Sat, 15 Jan 2022 18:19:21: 10000000 INFO @ Sat, 15 Jan 2022 18:19:23: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:19:23: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:19:23: #1 total tags in treatment: 4262769 INFO @ Sat, 15 Jan 2022 18:19:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:19:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:19:24: #1 tags after filtering in treatment: 2430186 INFO @ Sat, 15 Jan 2022 18:19:24: #1 Redundant rate of treatment: 0.43 INFO @ Sat, 15 Jan 2022 18:19:24: #1 finished! INFO @ Sat, 15 Jan 2022 18:19:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:19:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:19:24: #2 number of paired peaks: 39 WARNING @ Sat, 15 Jan 2022 18:19:24: Too few paired peaks (39) 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 @ Sat, 15 Jan 2022 18:19:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.20_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/sacCer3/SRX8829413/SRX8829413.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829413/SRX8829413.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling