Job ID = 14521791 SRX = SRX9399062 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5286393 spots for SRR12935343/SRR12935343.sra Written 5286393 spots for SRR12935343/SRR12935343.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: 00:03:45 5286393 reads; of these: 5286393 (100.00%) were paired; of these: 800848 (15.15%) aligned concordantly 0 times 3947906 (74.68%) aligned concordantly exactly 1 time 537639 (10.17%) aligned concordantly >1 times ---- 800848 pairs aligned concordantly 0 times; of these: 216336 (27.01%) aligned discordantly 1 time ---- 584512 pairs aligned 0 times concordantly or discordantly; of these: 1169024 mates make up the pairs; of these: 838078 (71.69%) aligned 0 times 245294 (20.98%) aligned exactly 1 time 85652 (7.33%) aligned >1 times 92.07% overall alignment rate Time searching: 00:03:45 Overall time: 00:03:45 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] 342159 / 4606447 = 0.0743 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 21:44:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.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 21:44:11: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:11: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:21: 1000000 INFO @ Sat, 15 Jan 2022 21:44:32: 2000000 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 21:44:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.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 21:44:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:44:43: 3000000 INFO @ Sat, 15 Jan 2022 21:44:51: 1000000 INFO @ Sat, 15 Jan 2022 21:44:54: 4000000 INFO @ Sat, 15 Jan 2022 21:45:01: 2000000 INFO @ Sat, 15 Jan 2022 21:45:04: 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 21:45:10: 3000000 INFO @ Sat, 15 Jan 2022 21:45:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.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 21:45:11: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:11: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:16: 6000000 INFO @ Sat, 15 Jan 2022 21:45:20: 4000000 INFO @ Sat, 15 Jan 2022 21:45:22: 1000000 INFO @ Sat, 15 Jan 2022 21:45:27: 7000000 INFO @ Sat, 15 Jan 2022 21:45:30: 5000000 INFO @ Sat, 15 Jan 2022 21:45:33: 2000000 INFO @ Sat, 15 Jan 2022 21:45:39: 8000000 INFO @ Sat, 15 Jan 2022 21:45:39: 6000000 INFO @ Sat, 15 Jan 2022 21:45:44: 3000000 INFO @ Sat, 15 Jan 2022 21:45:50: 7000000 INFO @ Sat, 15 Jan 2022 21:45:50: 9000000 INFO @ Sat, 15 Jan 2022 21:45:51: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 21:45:51: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 21:45:51: #1 total tags in treatment: 4146974 INFO @ Sat, 15 Jan 2022 21:45:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:51: #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 21:45:51: #1 tags after filtering in treatment: 2950232 INFO @ Sat, 15 Jan 2022 21:45:51: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:45:51: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:51: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:45:51: Too few paired peaks (2) 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 21:45:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.05_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/SRX9399062/SRX9399062.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:45:54: 4000000 INFO @ Sat, 15 Jan 2022 21:45:59: 8000000 INFO @ Sat, 15 Jan 2022 21:46:05: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:08: 9000000 INFO @ Sat, 15 Jan 2022 21:46:08: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 21:46:08: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 21:46:08: #1 total tags in treatment: 4146974 INFO @ Sat, 15 Jan 2022 21:46:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:08: #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 21:46:08: #1 tags after filtering in treatment: 2950232 INFO @ Sat, 15 Jan 2022 21:46:08: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:46:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:09: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:46:09: Too few paired peaks (2) 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 21:46:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.10_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/SRX9399062/SRX9399062.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:16: 6000000 INFO @ Sat, 15 Jan 2022 21:46:26: 7000000 INFO @ Sat, 15 Jan 2022 21:46:36: 8000000 INFO @ Sat, 15 Jan 2022 21:46:47: 9000000 INFO @ Sat, 15 Jan 2022 21:46:47: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 21:46:47: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 21:46:47: #1 total tags in treatment: 4146974 INFO @ Sat, 15 Jan 2022 21:46:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:47: #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 21:46:47: #1 tags after filtering in treatment: 2950232 INFO @ Sat, 15 Jan 2022 21:46:47: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:46:47: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:47: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:46:47: Too few paired peaks (2) 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 21:46:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.20_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/SRX9399062/SRX9399062.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399062/SRX9399062.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling