Job ID = 14521765 SRX = SRX9399175 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9908594 spots for SRR12935456/SRR12935456.sra Written 9908594 spots for SRR12935456/SRR12935456.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: 00:05:36 9908594 reads; of these: 9908594 (100.00%) were paired; of these: 1828633 (18.46%) aligned concordantly 0 times 7025012 (70.90%) aligned concordantly exactly 1 time 1054949 (10.65%) aligned concordantly >1 times ---- 1828633 pairs aligned concordantly 0 times; of these: 393092 (21.50%) aligned discordantly 1 time ---- 1435541 pairs aligned 0 times concordantly or discordantly; of these: 2871082 mates make up the pairs; of these: 2385823 (83.10%) aligned 0 times 334206 (11.64%) aligned exactly 1 time 151053 (5.26%) aligned >1 times 87.96% overall alignment rate Time searching: 00:05:36 Overall time: 00:05:36 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] 1300736 / 8301199 = 0.1567 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 21:43:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.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 21:43:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:18: 1000000 INFO @ Sat, 15 Jan 2022 21:43:23: 2000000 INFO @ Sat, 15 Jan 2022 21:43:28: 3000000 INFO @ Sat, 15 Jan 2022 21:43:33: 4000000 INFO @ Sat, 15 Jan 2022 21:43:37: 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 21:43:42: 6000000 INFO @ Sat, 15 Jan 2022 21:43:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.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 21:43:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:49: 7000000 INFO @ Sat, 15 Jan 2022 21:43:49: 1000000 INFO @ Sat, 15 Jan 2022 21:43:55: 8000000 INFO @ Sat, 15 Jan 2022 21:43:56: 2000000 INFO @ Sat, 15 Jan 2022 21:44:01: 9000000 INFO @ Sat, 15 Jan 2022 21:44:03: 3000000 INFO @ Sat, 15 Jan 2022 21:44:07: 10000000 INFO @ Sat, 15 Jan 2022 21:44:10: 4000000 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 21:44:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.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 21:44:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:13: 11000000 INFO @ Sat, 15 Jan 2022 21:44:17: 5000000 INFO @ Sat, 15 Jan 2022 21:44:19: 12000000 INFO @ Sat, 15 Jan 2022 21:44:19: 1000000 INFO @ Sat, 15 Jan 2022 21:44:24: 6000000 INFO @ Sat, 15 Jan 2022 21:44:25: 13000000 INFO @ Sat, 15 Jan 2022 21:44:25: 2000000 INFO @ Sat, 15 Jan 2022 21:44:30: 7000000 INFO @ Sat, 15 Jan 2022 21:44:31: 14000000 INFO @ Sat, 15 Jan 2022 21:44:31: 3000000 INFO @ Sat, 15 Jan 2022 21:44:36: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:44:36: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:44:36: #1 total tags in treatment: 6802397 INFO @ Sat, 15 Jan 2022 21:44:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:44:36: #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 21:44:36: #1 tags after filtering in treatment: 4015935 INFO @ Sat, 15 Jan 2022 21:44:36: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 21:44:36: #1 finished! INFO @ Sat, 15 Jan 2022 21:44:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:44:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:44:36: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:44:36: Too few paired peaks (0) 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 21:44:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.05_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/SRX9399175/SRX9399175.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:44:37: 8000000 INFO @ Sat, 15 Jan 2022 21:44:38: 4000000 INFO @ Sat, 15 Jan 2022 21:44:44: 5000000 INFO @ Sat, 15 Jan 2022 21:44:45: 9000000 INFO @ Sat, 15 Jan 2022 21:44:50: 6000000 INFO @ Sat, 15 Jan 2022 21:44:52: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:44:56: 7000000 INFO @ Sat, 15 Jan 2022 21:44:59: 11000000 INFO @ Sat, 15 Jan 2022 21:45:03: 8000000 INFO @ Sat, 15 Jan 2022 21:45:06: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:45:09: 9000000 INFO @ Sat, 15 Jan 2022 21:45:13: 13000000 INFO @ Sat, 15 Jan 2022 21:45:15: 10000000 INFO @ Sat, 15 Jan 2022 21:45:20: 14000000 INFO @ Sat, 15 Jan 2022 21:45:22: 11000000 INFO @ Sat, 15 Jan 2022 21:45:26: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:45:26: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:45:26: #1 total tags in treatment: 6802397 INFO @ Sat, 15 Jan 2022 21:45:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:26: #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 21:45:26: #1 tags after filtering in treatment: 4015935 INFO @ Sat, 15 Jan 2022 21:45:26: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 21:45:26: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:26: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:45:26: Too few paired peaks (0) 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 21:45:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.10_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/SRX9399175/SRX9399175.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:45:28: 12000000 INFO @ Sat, 15 Jan 2022 21:45:33: 13000000 INFO @ Sat, 15 Jan 2022 21:45:39: 14000000 INFO @ Sat, 15 Jan 2022 21:45:43: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:45:43: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:45:43: #1 total tags in treatment: 6802397 INFO @ Sat, 15 Jan 2022 21:45:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:43: #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 21:45:43: #1 tags after filtering in treatment: 4015935 INFO @ Sat, 15 Jan 2022 21:45:43: #1 Redundant rate of treatment: 0.41 INFO @ Sat, 15 Jan 2022 21:45:43: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:44: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:45:44: Too few paired peaks (0) 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 21:45:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.20_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/SRX9399175/SRX9399175.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399175/SRX9399175.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling