Job ID = 14520537 SRX = SRX9144939 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13966524 spots for SRR12664297/SRR12664297.sra Written 13966524 spots for SRR12664297/SRR12664297.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: 00:37:22 13966524 reads; of these: 13966524 (100.00%) were paired; of these: 573288 (4.10%) aligned concordantly 0 times 10931169 (78.27%) aligned concordantly exactly 1 time 2462067 (17.63%) aligned concordantly >1 times ---- 573288 pairs aligned concordantly 0 times; of these: 130210 (22.71%) aligned discordantly 1 time ---- 443078 pairs aligned 0 times concordantly or discordantly; of these: 886156 mates make up the pairs; of these: 711590 (80.30%) aligned 0 times 60794 (6.86%) aligned exactly 1 time 113772 (12.84%) aligned >1 times 97.45% overall alignment rate Time searching: 00:37:22 Overall time: 00:37:22 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 20 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] 5514523 / 13520521 = 0.4079 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 20:06:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.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 20:06:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:06:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:06:21: 1000000 INFO @ Sat, 15 Jan 2022 20:06:28: 2000000 INFO @ Sat, 15 Jan 2022 20:06:34: 3000000 INFO @ Sat, 15 Jan 2022 20:06:42: 4000000 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 20:06:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.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 20:06:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:06:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:06:50: 5000000 INFO @ Sat, 15 Jan 2022 20:06:53: 1000000 INFO @ Sat, 15 Jan 2022 20:06:58: 6000000 INFO @ Sat, 15 Jan 2022 20:07:03: 2000000 INFO @ Sat, 15 Jan 2022 20:07:06: 7000000 INFO @ Sat, 15 Jan 2022 20:07:12: 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 20:07:14: 8000000 INFO @ Sat, 15 Jan 2022 20:07:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.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 20:07:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:07:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:07:22: 9000000 INFO @ Sat, 15 Jan 2022 20:07:22: 4000000 INFO @ Sat, 15 Jan 2022 20:07:23: 1000000 INFO @ Sat, 15 Jan 2022 20:07:30: 10000000 INFO @ Sat, 15 Jan 2022 20:07:31: 2000000 INFO @ Sat, 15 Jan 2022 20:07:31: 5000000 INFO @ Sat, 15 Jan 2022 20:07:38: 11000000 INFO @ Sat, 15 Jan 2022 20:07:39: 3000000 INFO @ Sat, 15 Jan 2022 20:07:41: 6000000 INFO @ Sat, 15 Jan 2022 20:07:46: 12000000 INFO @ Sat, 15 Jan 2022 20:07:47: 4000000 INFO @ Sat, 15 Jan 2022 20:07:50: 7000000 INFO @ Sat, 15 Jan 2022 20:07:54: 13000000 INFO @ Sat, 15 Jan 2022 20:07:55: 5000000 INFO @ Sat, 15 Jan 2022 20:07:59: 8000000 INFO @ Sat, 15 Jan 2022 20:08:02: 14000000 INFO @ Sat, 15 Jan 2022 20:08:03: 6000000 INFO @ Sat, 15 Jan 2022 20:08:08: 9000000 INFO @ Sat, 15 Jan 2022 20:08:10: 15000000 INFO @ Sat, 15 Jan 2022 20:08:11: 7000000 INFO @ Sat, 15 Jan 2022 20:08:18: 10000000 INFO @ Sat, 15 Jan 2022 20:08:18: 16000000 INFO @ Sat, 15 Jan 2022 20:08:19: 8000000 INFO @ Sat, 15 Jan 2022 20:08:19: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 20:08:19: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 20:08:19: #1 total tags in treatment: 7929016 INFO @ Sat, 15 Jan 2022 20:08:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:08:19: #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 20:08:19: #1 tags after filtering in treatment: 5700749 INFO @ Sat, 15 Jan 2022 20:08:19: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 20:08:19: #1 finished! INFO @ Sat, 15 Jan 2022 20:08:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:08:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:08:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:08:20: 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 20:08:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.05_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/SRX9144939/SRX9144939.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:08:27: 11000000 INFO @ Sat, 15 Jan 2022 20:08:27: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:08:34: 10000000 INFO @ Sat, 15 Jan 2022 20:08:36: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:08:42: 11000000 INFO @ Sat, 15 Jan 2022 20:08:45: 13000000 INFO @ Sat, 15 Jan 2022 20:08:50: 12000000 INFO @ Sat, 15 Jan 2022 20:08:54: 14000000 INFO @ Sat, 15 Jan 2022 20:08:57: 13000000 INFO @ Sat, 15 Jan 2022 20:09:03: 15000000 INFO @ Sat, 15 Jan 2022 20:09:05: 14000000 INFO @ Sat, 15 Jan 2022 20:09:12: 16000000 INFO @ Sat, 15 Jan 2022 20:09:13: 15000000 INFO @ Sat, 15 Jan 2022 20:09:13: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 20:09:13: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 20:09:13: #1 total tags in treatment: 7929016 INFO @ Sat, 15 Jan 2022 20:09:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:09:13: #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 20:09:13: #1 tags after filtering in treatment: 5700749 INFO @ Sat, 15 Jan 2022 20:09:13: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 20:09:13: #1 finished! INFO @ Sat, 15 Jan 2022 20:09:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:09:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:09:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:09:14: 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 20:09:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.10_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/SRX9144939/SRX9144939.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:09:20: 16000000 INFO @ Sat, 15 Jan 2022 20:09:22: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 20:09:22: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 20:09:22: #1 total tags in treatment: 7929016 INFO @ Sat, 15 Jan 2022 20:09:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:09:22: #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 20:09:22: #1 tags after filtering in treatment: 5700749 INFO @ Sat, 15 Jan 2022 20:09:22: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 20:09:22: #1 finished! INFO @ Sat, 15 Jan 2022 20:09:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:09:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:09:22: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:09:22: 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 20:09:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.20_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/SRX9144939/SRX9144939.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144939/SRX9144939.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling