Job ID = 14521759 SRX = SRX9399059 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5572252 spots for SRR12935340/SRR12935340.sra Written 5572252 spots for SRR12935340/SRR12935340.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: 00:05:07 5572252 reads; of these: 5572252 (100.00%) were paired; of these: 789451 (14.17%) aligned concordantly 0 times 4205093 (75.46%) aligned concordantly exactly 1 time 577708 (10.37%) aligned concordantly >1 times ---- 789451 pairs aligned concordantly 0 times; of these: 189336 (23.98%) aligned discordantly 1 time ---- 600115 pairs aligned 0 times concordantly or discordantly; of these: 1200230 mates make up the pairs; of these: 871935 (72.65%) aligned 0 times 249137 (20.76%) aligned exactly 1 time 79158 (6.60%) aligned >1 times 92.18% overall alignment rate Time searching: 00:05:07 Overall time: 00:05:07 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_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] 383546 / 4910877 = 0.0781 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 21:41:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.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 21:41:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:41:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:41:34: 1000000 INFO @ Sat, 15 Jan 2022 21:41:42: 2000000 INFO @ Sat, 15 Jan 2022 21:41:50: 3000000 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 21:41:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.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 21:41:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:41:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:41:58: 4000000 INFO @ Sat, 15 Jan 2022 21:42:08: 5000000 INFO @ Sat, 15 Jan 2022 21:42:08: 1000000 INFO @ Sat, 15 Jan 2022 21:42:16: 6000000 INFO @ Sat, 15 Jan 2022 21:42:20: 2000000 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 21:42:24: 7000000 INFO @ Sat, 15 Jan 2022 21:42:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.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 21:42:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:32: 8000000 INFO @ Sat, 15 Jan 2022 21:42:33: 3000000 INFO @ Sat, 15 Jan 2022 21:42:38: 1000000 INFO @ Sat, 15 Jan 2022 21:42:40: 9000000 INFO @ Sat, 15 Jan 2022 21:42:43: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:42:43: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:42:43: #1 total tags in treatment: 4403422 INFO @ Sat, 15 Jan 2022 21:42:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:43: #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 21:42:44: #1 tags after filtering in treatment: 3088682 INFO @ Sat, 15 Jan 2022 21:42:44: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:42:44: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:44: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:42:44: Too few paired peaks (1) 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 21:42:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 21:42:44: 4000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:42:49: 2000000 INFO @ Sat, 15 Jan 2022 21:42:55: 5000000 INFO @ Sat, 15 Jan 2022 21:42:57: 3000000 INFO @ Sat, 15 Jan 2022 21:43:05: 4000000 INFO @ Sat, 15 Jan 2022 21:43:07: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:43:12: 5000000 INFO @ Sat, 15 Jan 2022 21:43:19: 6000000 INFO @ Sat, 15 Jan 2022 21:43:20: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:43:27: 7000000 INFO @ Sat, 15 Jan 2022 21:43:33: 8000000 INFO @ Sat, 15 Jan 2022 21:43:34: 8000000 INFO @ Sat, 15 Jan 2022 21:43:42: 9000000 INFO @ Sat, 15 Jan 2022 21:43:46: 9000000 INFO @ Sat, 15 Jan 2022 21:43:47: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:43:47: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:43:47: #1 total tags in treatment: 4403422 INFO @ Sat, 15 Jan 2022 21:43:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:47: #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 21:43:47: #1 tags after filtering in treatment: 3088682 INFO @ Sat, 15 Jan 2022 21:43:47: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:43:47: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:47: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:43:47: Too few paired peaks (1) 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 21:43:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.20_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/SRX9399059/SRX9399059.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:52: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:43:52: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:43:52: #1 total tags in treatment: 4403422 INFO @ Sat, 15 Jan 2022 21:43:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:52: #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 21:43:52: #1 tags after filtering in treatment: 3088682 INFO @ Sat, 15 Jan 2022 21:43:52: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:43:52: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:53: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:43:53: Too few paired peaks (1) 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 21:43:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.10_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/SRX9399059/SRX9399059.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399059/SRX9399059.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling