Job ID = 14520205 SRX = SRX7919609 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12731547 spots for SRR11315226/SRR11315226.sra Written 12731547 spots for SRR11315226/SRR11315226.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: 00:07:31 12731547 reads; of these: 12731547 (100.00%) were paired; of these: 4112385 (32.30%) aligned concordantly 0 times 7783114 (61.13%) aligned concordantly exactly 1 time 836048 (6.57%) aligned concordantly >1 times ---- 4112385 pairs aligned concordantly 0 times; of these: 1586694 (38.58%) aligned discordantly 1 time ---- 2525691 pairs aligned 0 times concordantly or discordantly; of these: 5051382 mates make up the pairs; of these: 3352793 (66.37%) aligned 0 times 1319858 (26.13%) aligned exactly 1 time 378731 (7.50%) aligned >1 times 86.83% overall alignment rate Time searching: 00:07:31 Overall time: 00:07:31 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 12 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] 4048555 / 8750141 = 0.4627 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 18:50:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.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 18:50:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:50:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:50:58: 1000000 INFO @ Sat, 15 Jan 2022 18:51:03: 2000000 INFO @ Sat, 15 Jan 2022 18:51:07: 3000000 INFO @ Sat, 15 Jan 2022 18:51:11: 4000000 INFO @ Sat, 15 Jan 2022 18:51:16: 5000000 INFO @ Sat, 15 Jan 2022 18:51:20: 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 18:51:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.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 18:51:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:51:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:51:25: 7000000 INFO @ Sat, 15 Jan 2022 18:51:29: 1000000 INFO @ Sat, 15 Jan 2022 18:51:30: 8000000 INFO @ Sat, 15 Jan 2022 18:51:34: 9000000 INFO @ Sat, 15 Jan 2022 18:51:35: 2000000 INFO @ Sat, 15 Jan 2022 18:51:39: 10000000 INFO @ Sat, 15 Jan 2022 18:51:40: 3000000 INFO @ Sat, 15 Jan 2022 18:51:43: 11000000 INFO @ Sat, 15 Jan 2022 18:51:46: 4000000 INFO @ Sat, 15 Jan 2022 18:51:48: 12000000 INFO @ Sat, 15 Jan 2022 18:51:51: 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 18:51:53: 13000000 INFO @ Sat, 15 Jan 2022 18:51:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.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 18:51:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:51:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:51:56: 6000000 INFO @ Sat, 15 Jan 2022 18:51:58: 14000000 INFO @ Sat, 15 Jan 2022 18:51:58: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:51:58: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:51:58: #1 total tags in treatment: 4628549 INFO @ Sat, 15 Jan 2022 18:51:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:51:58: #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 18:51:58: #1 tags after filtering in treatment: 3100612 INFO @ Sat, 15 Jan 2022 18:51:58: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 18:51:58: #1 finished! INFO @ Sat, 15 Jan 2022 18:51:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:51:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:51:58: #2 number of paired peaks: 3 WARNING @ Sat, 15 Jan 2022 18:51:58: Too few paired peaks (3) 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 18:51:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.05_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/SRX7919609/SRX7919609.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:51:59: 1000000 INFO @ Sat, 15 Jan 2022 18:52:02: 7000000 INFO @ Sat, 15 Jan 2022 18:52:05: 2000000 INFO @ Sat, 15 Jan 2022 18:52:07: 8000000 INFO @ Sat, 15 Jan 2022 18:52:10: 3000000 INFO @ Sat, 15 Jan 2022 18:52:12: 9000000 INFO @ Sat, 15 Jan 2022 18:52:16: 4000000 INFO @ Sat, 15 Jan 2022 18:52:17: 10000000 INFO @ Sat, 15 Jan 2022 18:52:21: 5000000 INFO @ Sat, 15 Jan 2022 18:52:22: 11000000 INFO @ Sat, 15 Jan 2022 18:52:27: 6000000 INFO @ Sat, 15 Jan 2022 18:52:27: 12000000 INFO @ Sat, 15 Jan 2022 18:52:32: 13000000 INFO @ Sat, 15 Jan 2022 18:52:32: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:52:37: 14000000 INFO @ Sat, 15 Jan 2022 18:52:38: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:52:38: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:52:38: #1 total tags in treatment: 4628549 INFO @ Sat, 15 Jan 2022 18:52:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:52:38: #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 18:52:38: #1 tags after filtering in treatment: 3100612 INFO @ Sat, 15 Jan 2022 18:52:38: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 18:52:38: #1 finished! INFO @ Sat, 15 Jan 2022 18:52:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:52:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:52:38: #2 number of paired peaks: 3 WARNING @ Sat, 15 Jan 2022 18:52:38: Too few paired peaks (3) 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 18:52:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.10_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/SRX7919609/SRX7919609.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:52:38: 8000000 INFO @ Sat, 15 Jan 2022 18:52:43: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:52:48: 10000000 INFO @ Sat, 15 Jan 2022 18:52:53: 11000000 INFO @ Sat, 15 Jan 2022 18:52:58: 12000000 INFO @ Sat, 15 Jan 2022 18:53:03: 13000000 INFO @ Sat, 15 Jan 2022 18:53:08: 14000000 INFO @ Sat, 15 Jan 2022 18:53:08: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 18:53:08: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 18:53:08: #1 total tags in treatment: 4628549 INFO @ Sat, 15 Jan 2022 18:53:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:53:08: #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 18:53:08: #1 tags after filtering in treatment: 3100612 INFO @ Sat, 15 Jan 2022 18:53:08: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 18:53:08: #1 finished! INFO @ Sat, 15 Jan 2022 18:53:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:53:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:53:08: #2 number of paired peaks: 3 WARNING @ Sat, 15 Jan 2022 18:53:08: Too few paired peaks (3) 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 18:53:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.20_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/SRX7919609/SRX7919609.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7919609/SRX7919609.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling