Job ID = 14521397 SRX = SRX8952659 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15967470 spots for SRR12458227/SRR12458227.sra Written 15967470 spots for SRR12458227/SRR12458227.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: 00:06:53 15967470 reads; of these: 15967470 (100.00%) were paired; of these: 8704951 (54.52%) aligned concordantly 0 times 5488505 (34.37%) aligned concordantly exactly 1 time 1774014 (11.11%) aligned concordantly >1 times ---- 8704951 pairs aligned concordantly 0 times; of these: 1172592 (13.47%) aligned discordantly 1 time ---- 7532359 pairs aligned 0 times concordantly or discordantly; of these: 15064718 mates make up the pairs; of these: 11225028 (74.51%) aligned 0 times 2790073 (18.52%) aligned exactly 1 time 1049617 (6.97%) aligned >1 times 64.85% overall alignment rate Time searching: 00:06:53 Overall time: 00:06:53 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 8 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] 2503499 / 8077823 = 0.3099 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 21:08:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.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 21:08:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:08:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:03: 1000000 INFO @ Sat, 15 Jan 2022 21:09:09: 2000000 INFO @ Sat, 15 Jan 2022 21:09:14: 3000000 INFO @ Sat, 15 Jan 2022 21:09:20: 4000000 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 21:09:26: 5000000 INFO @ Sat, 15 Jan 2022 21:09:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.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 21:09:27: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:09:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:32: 6000000 INFO @ Sat, 15 Jan 2022 21:09:33: 1000000 INFO @ Sat, 15 Jan 2022 21:09:38: 7000000 INFO @ Sat, 15 Jan 2022 21:09:38: 2000000 INFO @ Sat, 15 Jan 2022 21:09:43: 3000000 INFO @ Sat, 15 Jan 2022 21:09:44: 8000000 INFO @ Sat, 15 Jan 2022 21:09:49: 4000000 INFO @ Sat, 15 Jan 2022 21:09:51: 9000000 INFO @ Sat, 15 Jan 2022 21:09:54: 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 21:09:57: 10000000 INFO @ Sat, 15 Jan 2022 21:09:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.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 21:09:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:09:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:59: 6000000 INFO @ Sat, 15 Jan 2022 21:10:03: 11000000 INFO @ Sat, 15 Jan 2022 21:10:03: 1000000 INFO @ Sat, 15 Jan 2022 21:10:05: 7000000 INFO @ Sat, 15 Jan 2022 21:10:09: 12000000 INFO @ Sat, 15 Jan 2022 21:10:10: 2000000 INFO @ Sat, 15 Jan 2022 21:10:10: 8000000 INFO @ Sat, 15 Jan 2022 21:10:16: 13000000 INFO @ Sat, 15 Jan 2022 21:10:16: 3000000 INFO @ Sat, 15 Jan 2022 21:10:16: 9000000 INFO @ Sat, 15 Jan 2022 21:10:21: 10000000 INFO @ Sat, 15 Jan 2022 21:10:22: 4000000 INFO @ Sat, 15 Jan 2022 21:10:22: 14000000 INFO @ Sat, 15 Jan 2022 21:10:27: 11000000 INFO @ Sat, 15 Jan 2022 21:10:28: 5000000 INFO @ Sat, 15 Jan 2022 21:10:28: 15000000 INFO @ Sat, 15 Jan 2022 21:10:33: 12000000 INFO @ Sat, 15 Jan 2022 21:10:33: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:10:33: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:10:33: #1 total tags in treatment: 5139488 INFO @ Sat, 15 Jan 2022 21:10:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:10:33: #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 21:10:33: #1 tags after filtering in treatment: 3642756 INFO @ Sat, 15 Jan 2022 21:10:33: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:10:33: #1 finished! INFO @ Sat, 15 Jan 2022 21:10:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:10:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:10:33: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 21:10:33: Too few paired peaks (32) 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 21:10:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.05_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/SRX8952659/SRX8952659.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:10:34: 6000000 INFO @ Sat, 15 Jan 2022 21:10:38: 13000000 INFO @ Sat, 15 Jan 2022 21:10:40: 7000000 INFO @ Sat, 15 Jan 2022 21:10:44: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:10:46: 8000000 INFO @ Sat, 15 Jan 2022 21:10:49: 15000000 INFO @ Sat, 15 Jan 2022 21:10:52: 9000000 INFO @ Sat, 15 Jan 2022 21:10:53: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:10:53: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:10:53: #1 total tags in treatment: 5139488 INFO @ Sat, 15 Jan 2022 21:10:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:10:53: #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 21:10:53: #1 tags after filtering in treatment: 3642756 INFO @ Sat, 15 Jan 2022 21:10:53: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:10:53: #1 finished! INFO @ Sat, 15 Jan 2022 21:10:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:10:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:10:53: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 21:10:53: Too few paired peaks (32) 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 21:10:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.10_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/sacCer3/SRX8952659/SRX8952659.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:10:58: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:11:04: 11000000 INFO @ Sat, 15 Jan 2022 21:11:09: 12000000 INFO @ Sat, 15 Jan 2022 21:11:15: 13000000 INFO @ Sat, 15 Jan 2022 21:11:20: 14000000 INFO @ Sat, 15 Jan 2022 21:11:26: 15000000 INFO @ Sat, 15 Jan 2022 21:11:30: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:11:30: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:11:30: #1 total tags in treatment: 5139488 INFO @ Sat, 15 Jan 2022 21:11:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:30: #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 21:11:30: #1 tags after filtering in treatment: 3642756 INFO @ Sat, 15 Jan 2022 21:11:30: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:11:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:30: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 21:11:30: Too few paired peaks (32) 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 21:11:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.20_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/SRX8952659/SRX8952659.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952659/SRX8952659.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling