Job ID = 14521566 SRX = SRX9493770 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5328655 spots for SRR13043892/SRR13043892.sra Written 5328655 spots for SRR13043892/SRR13043892.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: 00:04:32 5328655 reads; of these: 5328655 (100.00%) were paired; of these: 178374 (3.35%) aligned concordantly 0 times 4452355 (83.55%) aligned concordantly exactly 1 time 697926 (13.10%) aligned concordantly >1 times ---- 178374 pairs aligned concordantly 0 times; of these: 50462 (28.29%) aligned discordantly 1 time ---- 127912 pairs aligned 0 times concordantly or discordantly; of these: 255824 mates make up the pairs; of these: 175668 (68.67%) aligned 0 times 50513 (19.75%) aligned exactly 1 time 29643 (11.59%) aligned >1 times 98.35% overall alignment rate Time searching: 00:04:32 Overall time: 00:04:32 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] 116647 / 5191354 = 0.0225 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 21:17:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.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 21:17:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:17:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:17:38: 1000000 INFO @ Sat, 15 Jan 2022 21:17:46: 2000000 INFO @ Sat, 15 Jan 2022 21:17:53: 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 21:18:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.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 21:18:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:18:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:18:01: 4000000 INFO @ Sat, 15 Jan 2022 21:18:09: 1000000 INFO @ Sat, 15 Jan 2022 21:18:09: 5000000 INFO @ Sat, 15 Jan 2022 21:18:17: 2000000 INFO @ Sat, 15 Jan 2022 21:18:17: 6000000 INFO @ Sat, 15 Jan 2022 21:18:24: 7000000 INFO @ Sat, 15 Jan 2022 21:18:25: 3000000 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 21:18:31: 8000000 INFO @ Sat, 15 Jan 2022 21:18:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.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 21:18:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:18:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:18:33: 4000000 INFO @ Sat, 15 Jan 2022 21:18:38: 9000000 INFO @ Sat, 15 Jan 2022 21:18:38: 1000000 INFO @ Sat, 15 Jan 2022 21:18:41: 5000000 INFO @ Sat, 15 Jan 2022 21:18:45: 10000000 INFO @ Sat, 15 Jan 2022 21:18:45: 2000000 INFO @ Sat, 15 Jan 2022 21:18:46: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:18:46: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:18:46: #1 total tags in treatment: 5034353 INFO @ Sat, 15 Jan 2022 21:18:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:18:46: #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 21:18:46: #1 tags after filtering in treatment: 4135908 INFO @ Sat, 15 Jan 2022 21:18:46: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 21:18:46: #1 finished! INFO @ Sat, 15 Jan 2022 21:18:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:18:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:18:47: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:18:47: Too few paired peaks (28) 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 21:18:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.05_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/SRX9493770/SRX9493770.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:18:49: 6000000 INFO @ Sat, 15 Jan 2022 21:18:52: 3000000 INFO @ Sat, 15 Jan 2022 21:18:57: 7000000 INFO @ Sat, 15 Jan 2022 21:18:59: 4000000 INFO @ Sat, 15 Jan 2022 21:19:05: 8000000 INFO @ Sat, 15 Jan 2022 21:19:06: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:19:13: 6000000 INFO @ Sat, 15 Jan 2022 21:19:13: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:19:20: 7000000 INFO @ Sat, 15 Jan 2022 21:19:21: 10000000 INFO @ Sat, 15 Jan 2022 21:19:22: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:19:22: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:19:22: #1 total tags in treatment: 5034353 INFO @ Sat, 15 Jan 2022 21:19:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:19:22: #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 21:19:23: #1 tags after filtering in treatment: 4135908 INFO @ Sat, 15 Jan 2022 21:19:23: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 21:19:23: #1 finished! INFO @ Sat, 15 Jan 2022 21:19:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:19:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:19:23: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:19:23: Too few paired peaks (28) 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 21:19:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.10_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/SRX9493770/SRX9493770.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:19:26: 8000000 INFO @ Sat, 15 Jan 2022 21:19:32: 9000000 INFO @ Sat, 15 Jan 2022 21:19:37: 10000000 INFO @ Sat, 15 Jan 2022 21:19:39: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:19:39: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:19:39: #1 total tags in treatment: 5034353 INFO @ Sat, 15 Jan 2022 21:19:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:19:39: #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 21:19:39: #1 tags after filtering in treatment: 4135908 INFO @ Sat, 15 Jan 2022 21:19:39: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 21:19:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:19:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:19:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:19:39: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:19:39: Too few paired peaks (28) 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 21:19:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.20_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/SRX9493770/SRX9493770.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493770/SRX9493770.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling