Job ID = 14521460 SRX = SRX10828594 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6203615 spots for SRR14480419/SRR14480419.sra Written 6203615 spots for SRR14480419/SRR14480419.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: 00:03:26 6203615 reads; of these: 6203615 (100.00%) were paired; of these: 689400 (11.11%) aligned concordantly 0 times 4602375 (74.19%) aligned concordantly exactly 1 time 911840 (14.70%) aligned concordantly >1 times ---- 689400 pairs aligned concordantly 0 times; of these: 173291 (25.14%) aligned discordantly 1 time ---- 516109 pairs aligned 0 times concordantly or discordantly; of these: 1032218 mates make up the pairs; of these: 782642 (75.82%) aligned 0 times 159797 (15.48%) aligned exactly 1 time 89779 (8.70%) aligned >1 times 93.69% overall alignment rate Time searching: 00:03:26 Overall time: 00:03:26 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] 896403 / 5585966 = 0.1605 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 21:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.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 21:07:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:07:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:07:17: 1000000 INFO @ Sat, 15 Jan 2022 21:07:22: 2000000 INFO @ Sat, 15 Jan 2022 21:07:26: 3000000 INFO @ Sat, 15 Jan 2022 21:07:31: 4000000 INFO @ Sat, 15 Jan 2022 21:07:35: 5000000 INFO @ Sat, 15 Jan 2022 21:07:40: 6000000 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 21:07:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.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 21:07:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:07:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:07:44: 7000000 INFO @ Sat, 15 Jan 2022 21:07:48: 1000000 INFO @ Sat, 15 Jan 2022 21:07:49: 8000000 INFO @ Sat, 15 Jan 2022 21:07:53: 2000000 INFO @ Sat, 15 Jan 2022 21:07:54: 9000000 INFO @ Sat, 15 Jan 2022 21:07:58: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:07:58: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:07:58: #1 total tags in treatment: 4621958 INFO @ Sat, 15 Jan 2022 21:07:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:07:58: #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 21:07:58: #1 tags after filtering in treatment: 3035351 INFO @ Sat, 15 Jan 2022 21:07:58: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:07:58: #1 finished! INFO @ Sat, 15 Jan 2022 21:07:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:07:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:07:58: 3000000 INFO @ Sat, 15 Jan 2022 21:07:58: #2 number of paired peaks: 15 WARNING @ Sat, 15 Jan 2022 21:07:58: 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 @ Sat, 15 Jan 2022 21:07:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.05_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/SRX10828594/SRX10828594.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:08:03: 4000000 INFO @ Sat, 15 Jan 2022 21:08:09: 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 21:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.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 21:08:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:08:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:08:14: 6000000 INFO @ Sat, 15 Jan 2022 21:08:18: 1000000 INFO @ Sat, 15 Jan 2022 21:08:19: 7000000 INFO @ Sat, 15 Jan 2022 21:08:23: 2000000 INFO @ Sat, 15 Jan 2022 21:08:24: 8000000 INFO @ Sat, 15 Jan 2022 21:08:28: 3000000 INFO @ Sat, 15 Jan 2022 21:08:30: 9000000 INFO @ Sat, 15 Jan 2022 21:08:33: 4000000 INFO @ Sat, 15 Jan 2022 21:08:34: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:08:34: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:08:34: #1 total tags in treatment: 4621958 INFO @ Sat, 15 Jan 2022 21:08:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:08:34: #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 21:08:35: #1 tags after filtering in treatment: 3035351 INFO @ Sat, 15 Jan 2022 21:08:35: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:08:35: #1 finished! INFO @ Sat, 15 Jan 2022 21:08:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:08:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:08:35: #2 number of paired peaks: 15 WARNING @ Sat, 15 Jan 2022 21:08:35: 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 @ Sat, 15 Jan 2022 21:08:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.10_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/SRX10828594/SRX10828594.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:08:38: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:08:43: 6000000 INFO @ Sat, 15 Jan 2022 21:08:49: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:08:54: 8000000 INFO @ Sat, 15 Jan 2022 21:09:00: 9000000 INFO @ Sat, 15 Jan 2022 21:09:04: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:09:04: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:09:04: #1 total tags in treatment: 4621958 INFO @ Sat, 15 Jan 2022 21:09:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:09:04: #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 21:09:04: #1 tags after filtering in treatment: 3035351 INFO @ Sat, 15 Jan 2022 21:09:04: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:09:04: #1 finished! INFO @ Sat, 15 Jan 2022 21:09:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:09:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:09:05: #2 number of paired peaks: 15 WARNING @ Sat, 15 Jan 2022 21:09:05: 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 @ Sat, 15 Jan 2022 21:09:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.20_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/SRX10828594/SRX10828594.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828594/SRX10828594.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling