Job ID = 14519654 SRX = SRX9067167 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4941902 spots for SRR12580320/SRR12580320.sra Written 4941902 spots for SRR12580320/SRR12580320.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:52 4941902 reads; of these: 4941902 (100.00%) were paired; of these: 1396965 (28.27%) aligned concordantly 0 times 3140754 (63.55%) aligned concordantly exactly 1 time 404183 (8.18%) aligned concordantly >1 times ---- 1396965 pairs aligned concordantly 0 times; of these: 115282 (8.25%) aligned discordantly 1 time ---- 1281683 pairs aligned 0 times concordantly or discordantly; of these: 2563366 mates make up the pairs; of these: 2353011 (91.79%) aligned 0 times 162857 (6.35%) aligned exactly 1 time 47498 (1.85%) aligned >1 times 76.19% overall alignment rate Time searching: 00:02:53 Overall time: 00:02:53 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] 250082 / 3598607 = 0.0695 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 17:19:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.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 17:19:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:19:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:20:02: 1000000 INFO @ Sat, 15 Jan 2022 17:20:10: 2000000 INFO @ Sat, 15 Jan 2022 17:20:17: 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 17:20:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.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 17:20:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:20:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:20:25: 4000000 INFO @ Sat, 15 Jan 2022 17:20:32: 1000000 INFO @ Sat, 15 Jan 2022 17:20:32: 5000000 INFO @ Sat, 15 Jan 2022 17:20:40: 6000000 INFO @ Sat, 15 Jan 2022 17:20:40: 2000000 INFO @ Sat, 15 Jan 2022 17:20:47: 7000000 INFO @ Sat, 15 Jan 2022 17:20:47: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 17:20:47: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 17:20:47: #1 total tags in treatment: 3295917 INFO @ Sat, 15 Jan 2022 17:20:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:20:47: #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 17:20:47: #1 tags after filtering in treatment: 2456665 INFO @ Sat, 15 Jan 2022 17:20:47: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 17:20:47: #1 finished! INFO @ Sat, 15 Jan 2022 17:20:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:20:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:20:47: #2 number of paired peaks: 8 WARNING @ Sat, 15 Jan 2022 17:20:47: Too few paired peaks (8) 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 17:20:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.05_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/SRX9067167/SRX9067167.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:20:48: 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 17:20:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.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 17:20:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:20:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:20:55: 4000000 INFO @ Sat, 15 Jan 2022 17:21:01: 1000000 INFO @ Sat, 15 Jan 2022 17:21:03: 5000000 INFO @ Sat, 15 Jan 2022 17:21:09: 2000000 INFO @ Sat, 15 Jan 2022 17:21:11: 6000000 INFO @ Sat, 15 Jan 2022 17:21:17: 3000000 INFO @ Sat, 15 Jan 2022 17:21:18: 7000000 INFO @ Sat, 15 Jan 2022 17:21:18: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 17:21:18: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 17:21:18: #1 total tags in treatment: 3295917 INFO @ Sat, 15 Jan 2022 17:21:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:21:18: #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 17:21:18: #1 tags after filtering in treatment: 2456665 INFO @ Sat, 15 Jan 2022 17:21:18: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 17:21:18: #1 finished! INFO @ Sat, 15 Jan 2022 17:21:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:21:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:21:19: #2 number of paired peaks: 8 WARNING @ Sat, 15 Jan 2022 17:21:19: Too few paired peaks (8) 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 17:21:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.10_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/SRX9067167/SRX9067167.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.10_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 17:21:25: 4000000 INFO @ Sat, 15 Jan 2022 17:21:33: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:21:41: 6000000 INFO @ Sat, 15 Jan 2022 17:21:49: 7000000 INFO @ Sat, 15 Jan 2022 17:21:49: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 17:21:49: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 17:21:49: #1 total tags in treatment: 3295917 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 17:21:49: #1 tags after filtering in treatment: 2456665 INFO @ Sat, 15 Jan 2022 17:21:49: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 17:21:49: #1 finished! INFO @ Sat, 15 Jan 2022 17:21:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:21:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:21:49: #2 number of paired peaks: 8 WARNING @ Sat, 15 Jan 2022 17:21:49: Too few paired peaks (8) 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 17:21:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.20_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/SRX9067167/SRX9067167.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067167/SRX9067167.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling