Job ID = 14519650 SRX = SRX9067163 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5022033 spots for SRR12580316/SRR12580316.sra Written 5022033 spots for SRR12580316/SRR12580316.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: 00:04:01 5022033 reads; of these: 5022033 (100.00%) were paired; of these: 726838 (14.47%) aligned concordantly 0 times 3680393 (73.28%) aligned concordantly exactly 1 time 614802 (12.24%) aligned concordantly >1 times ---- 726838 pairs aligned concordantly 0 times; of these: 144641 (19.90%) aligned discordantly 1 time ---- 582197 pairs aligned 0 times concordantly or discordantly; of these: 1164394 mates make up the pairs; of these: 907286 (77.92%) aligned 0 times 181206 (15.56%) aligned exactly 1 time 75902 (6.52%) aligned >1 times 90.97% overall alignment rate Time searching: 00:04:01 Overall time: 00:04:01 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] 351931 / 4361025 = 0.0807 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 17:19:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.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 17:19:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:19:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:19:48: 1000000 INFO @ Sat, 15 Jan 2022 17:19:55: 2000000 INFO @ Sat, 15 Jan 2022 17:20:03: 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 17:20:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.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 17:20:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:20:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:20:10: 4000000 INFO @ Sat, 15 Jan 2022 17:20:18: 1000000 INFO @ Sat, 15 Jan 2022 17:20:18: 5000000 INFO @ Sat, 15 Jan 2022 17:20:25: 6000000 INFO @ Sat, 15 Jan 2022 17:20:26: 2000000 INFO @ Sat, 15 Jan 2022 17:20:33: 7000000 INFO @ Sat, 15 Jan 2022 17:20:34: 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 17:20:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.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 17:20:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:20:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:20:41: 8000000 INFO @ Sat, 15 Jan 2022 17:20:42: 4000000 INFO @ Sat, 15 Jan 2022 17:20:44: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:20:44: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:20:44: #1 total tags in treatment: 3944983 INFO @ Sat, 15 Jan 2022 17:20:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:20:44: #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 17:20:44: #1 tags after filtering in treatment: 2823521 INFO @ Sat, 15 Jan 2022 17:20:44: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 17:20:44: #1 finished! INFO @ Sat, 15 Jan 2022 17:20:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:20:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:20:44: #2 number of paired peaks: 18 WARNING @ Sat, 15 Jan 2022 17:20:44: Too few paired peaks (18) 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 17:20:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:20:48: 1000000 INFO @ Sat, 15 Jan 2022 17:20:51: 5000000 INFO @ Sat, 15 Jan 2022 17:20:57: 2000000 INFO @ Sat, 15 Jan 2022 17:21:00: 6000000 INFO @ Sat, 15 Jan 2022 17:21:05: 3000000 INFO @ Sat, 15 Jan 2022 17:21:08: 7000000 INFO @ Sat, 15 Jan 2022 17:21:14: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:21:17: 8000000 INFO @ Sat, 15 Jan 2022 17:21:21: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:21:21: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:21:21: #1 total tags in treatment: 3944983 INFO @ Sat, 15 Jan 2022 17:21:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:21:21: #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 17:21:21: #1 tags after filtering in treatment: 2823521 INFO @ Sat, 15 Jan 2022 17:21:21: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 17:21:21: #1 finished! INFO @ Sat, 15 Jan 2022 17:21:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:21:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:21:21: #2 number of paired peaks: 18 WARNING @ Sat, 15 Jan 2022 17:21:21: Too few paired peaks (18) 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 17:21:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:21:22: 5000000 INFO @ Sat, 15 Jan 2022 17:21:30: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:21:38: 7000000 INFO @ Sat, 15 Jan 2022 17:21:46: 8000000 INFO @ Sat, 15 Jan 2022 17:21:49: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 17:21:49: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 17:21:49: #1 total tags in treatment: 3944983 INFO @ Sat, 15 Jan 2022 17:21:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:21:49: #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 17:21:50: #1 tags after filtering in treatment: 2823521 INFO @ Sat, 15 Jan 2022 17:21:50: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 17:21:50: #1 finished! INFO @ Sat, 15 Jan 2022 17:21:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:21:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:21:50: #2 number of paired peaks: 18 WARNING @ Sat, 15 Jan 2022 17:21:50: Too few paired peaks (18) 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 17:21:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067163/SRX9067163.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling