Job ID = 14522110 SRX = SRX9067142 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5410028 spots for SRR12580295/SRR12580295.sra Written 5410028 spots for SRR12580295/SRR12580295.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: 00:09:28 5410028 reads; of these: 5410028 (100.00%) were paired; of these: 4129916 (76.34%) aligned concordantly 0 times 1099956 (20.33%) aligned concordantly exactly 1 time 180156 (3.33%) aligned concordantly >1 times ---- 4129916 pairs aligned concordantly 0 times; of these: 1417587 (34.32%) aligned discordantly 1 time ---- 2712329 pairs aligned 0 times concordantly or discordantly; of these: 5424658 mates make up the pairs; of these: 4325743 (79.74%) aligned 0 times 554127 (10.21%) aligned exactly 1 time 544788 (10.04%) aligned >1 times 60.02% overall alignment rate Time searching: 00:09:28 Overall time: 00:09:28 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 8 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] 238672 / 2589063 = 0.0922 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 22:25:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.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 22:25:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:25:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:25:41: 1000000 INFO @ Sat, 15 Jan 2022 22:25:51: 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 22:26:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.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 22:26:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:26:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:26:01: 3000000 INFO @ Sat, 15 Jan 2022 22:26:12: 4000000 INFO @ Sat, 15 Jan 2022 22:26:13: 1000000 INFO @ Sat, 15 Jan 2022 22:26:22: 5000000 INFO @ Sat, 15 Jan 2022 22:26:24: 2000000 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 22:26:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.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 22:26:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:26:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:26:32: 6000000 INFO @ Sat, 15 Jan 2022 22:26:32: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:26:32: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:26:32: #1 total tags in treatment: 1160459 INFO @ Sat, 15 Jan 2022 22:26:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:26:32: #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 22:26:32: #1 tags after filtering in treatment: 988742 INFO @ Sat, 15 Jan 2022 22:26:32: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 22:26:32: #1 finished! INFO @ Sat, 15 Jan 2022 22:26:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:26:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:26:32: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:26:32: Too few paired peaks (27) 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 22:26:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.05_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/SRX9067142/SRX9067142.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:26:36: 3000000 INFO @ Sat, 15 Jan 2022 22:26:47: 4000000 INFO @ Sat, 15 Jan 2022 22:26:50: 1000000 INFO @ Sat, 15 Jan 2022 22:26:59: 5000000 INFO @ Sat, 15 Jan 2022 22:27:06: 2000000 INFO @ Sat, 15 Jan 2022 22:27:10: 6000000 INFO @ Sat, 15 Jan 2022 22:27:10: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:27:10: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:27:10: #1 total tags in treatment: 1160459 INFO @ Sat, 15 Jan 2022 22:27:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:27:10: #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 22:27:11: #1 tags after filtering in treatment: 988742 INFO @ Sat, 15 Jan 2022 22:27:11: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 22:27:11: #1 finished! INFO @ Sat, 15 Jan 2022 22:27:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:27:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:27:11: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:27:11: Too few paired peaks (27) 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 22:27:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.10_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/SRX9067142/SRX9067142.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.10_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 22:27:23: 3000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:27:39: 4000000 INFO @ Sat, 15 Jan 2022 22:27:54: 5000000 INFO @ Sat, 15 Jan 2022 22:28:08: 6000000 INFO @ Sat, 15 Jan 2022 22:28:08: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 22:28:08: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 22:28:08: #1 total tags in treatment: 1160459 INFO @ Sat, 15 Jan 2022 22:28:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:28:08: #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 22:28:08: #1 tags after filtering in treatment: 988742 INFO @ Sat, 15 Jan 2022 22:28:08: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 22:28:08: #1 finished! INFO @ Sat, 15 Jan 2022 22:28:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:28:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:28:08: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:28:08: Too few paired peaks (27) 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 22:28:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.20_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/SRX9067142/SRX9067142.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067142/SRX9067142.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling