Job ID = 14521754 SRX = SRX9399054 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6442920 spots for SRR12935335/SRR12935335.sra Written 6442920 spots for SRR12935335/SRR12935335.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: 00:02:54 6442920 reads; of these: 6442920 (100.00%) were paired; of these: 801492 (12.44%) aligned concordantly 0 times 4979863 (77.29%) aligned concordantly exactly 1 time 661565 (10.27%) aligned concordantly >1 times ---- 801492 pairs aligned concordantly 0 times; of these: 173675 (21.67%) aligned discordantly 1 time ---- 627817 pairs aligned 0 times concordantly or discordantly; of these: 1255634 mates make up the pairs; of these: 943576 (75.15%) aligned 0 times 239068 (19.04%) aligned exactly 1 time 72990 (5.81%) aligned >1 times 92.68% overall alignment rate Time searching: 00:02:54 Overall time: 00:02:54 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] 487170 / 5752578 = 0.0847 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 21:38:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.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 21:38:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:38:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:38:13: 1000000 INFO @ Sat, 15 Jan 2022 21:38:18: 2000000 INFO @ Sat, 15 Jan 2022 21:38:22: 3000000 INFO @ Sat, 15 Jan 2022 21:38:26: 4000000 INFO @ Sat, 15 Jan 2022 21:38:31: 5000000 INFO @ Sat, 15 Jan 2022 21:38:36: 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 21:38:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.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 21:38:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:38:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:38:40: 7000000 INFO @ Sat, 15 Jan 2022 21:38:43: 1000000 INFO @ Sat, 15 Jan 2022 21:38:45: 8000000 INFO @ Sat, 15 Jan 2022 21:38:49: 2000000 INFO @ Sat, 15 Jan 2022 21:38:51: 9000000 INFO @ Sat, 15 Jan 2022 21:38:54: 3000000 INFO @ Sat, 15 Jan 2022 21:38:56: 10000000 INFO @ Sat, 15 Jan 2022 21:38:58: 4000000 INFO @ Sat, 15 Jan 2022 21:39:01: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:39:01: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:39:01: #1 total tags in treatment: 5157381 INFO @ Sat, 15 Jan 2022 21:39:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:39:01: #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 21:39:01: #1 tags after filtering in treatment: 3466450 INFO @ Sat, 15 Jan 2022 21:39:01: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:39:01: #1 finished! INFO @ Sat, 15 Jan 2022 21:39:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:39:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:39:01: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:39:01: 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 21:39:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.05_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/SRX9399054/SRX9399054.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:39:03: 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 21:39:08: 6000000 INFO @ Sat, 15 Jan 2022 21:39:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.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 21:39:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:13: 7000000 INFO @ Sat, 15 Jan 2022 21:39:14: 1000000 INFO @ Sat, 15 Jan 2022 21:39:19: 2000000 INFO @ Sat, 15 Jan 2022 21:39:19: 8000000 INFO @ Sat, 15 Jan 2022 21:39:24: 3000000 INFO @ Sat, 15 Jan 2022 21:39:25: 9000000 INFO @ Sat, 15 Jan 2022 21:39:30: 4000000 INFO @ Sat, 15 Jan 2022 21:39:30: 10000000 INFO @ Sat, 15 Jan 2022 21:39:35: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:39:35: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:39:35: #1 total tags in treatment: 5157381 INFO @ Sat, 15 Jan 2022 21:39:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:39:35: #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 21:39:35: #1 tags after filtering in treatment: 3466450 INFO @ Sat, 15 Jan 2022 21:39:35: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:39:35: #1 finished! INFO @ Sat, 15 Jan 2022 21:39:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:39:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:39:35: 5000000 INFO @ Sat, 15 Jan 2022 21:39:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:39:35: 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 21:39:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.10_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/SRX9399054/SRX9399054.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:39:40: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:39:45: 7000000 INFO @ Sat, 15 Jan 2022 21:39:50: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:39:55: 9000000 INFO @ Sat, 15 Jan 2022 21:39:59: 10000000 INFO @ Sat, 15 Jan 2022 21:40:05: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:40:05: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:40:05: #1 total tags in treatment: 5157381 INFO @ Sat, 15 Jan 2022 21:40:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:40:05: #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 21:40:05: #1 tags after filtering in treatment: 3466450 INFO @ Sat, 15 Jan 2022 21:40:05: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:40:05: #1 finished! INFO @ Sat, 15 Jan 2022 21:40:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:40:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:40:05: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:40:05: 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 21:40:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.20_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/SRX9399054/SRX9399054.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399054/SRX9399054.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling