Job ID = 14520400 SRX = SRX11781128 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:02:21 prefetch.2.10.7: 1) Downloading 'SRR15481071'... 2022-01-15T10:02:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:02:40 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:02:40 prefetch.2.10.7: 'SRR15481071' is valid 2022-01-15T10:02:40 prefetch.2.10.7: 1) 'SRR15481071' was downloaded successfully 2022-01-15T10:02:40 prefetch.2.10.7: 'SRR15481071' has 0 unresolved dependencies Read 9123803 spots for SRR15481071/SRR15481071.sra Written 9123803 spots for SRR15481071/SRR15481071.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: 00:05:16 9123803 reads; of these: 9123803 (100.00%) were paired; of these: 5251131 (57.55%) aligned concordantly 0 times 3259360 (35.72%) aligned concordantly exactly 1 time 613312 (6.72%) aligned concordantly >1 times ---- 5251131 pairs aligned concordantly 0 times; of these: 19328 (0.37%) aligned discordantly 1 time ---- 5231803 pairs aligned 0 times concordantly or discordantly; of these: 10463606 mates make up the pairs; of these: 5448494 (52.07%) aligned 0 times 4204127 (40.18%) aligned exactly 1 time 810985 (7.75%) aligned >1 times 70.14% overall alignment rate Time searching: 00:05:16 Overall time: 00:05:16 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] 139596 / 3891249 = 0.0359 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 19:11:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.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 19:11:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:11:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:11:48: 1000000 INFO @ Sat, 15 Jan 2022 19:11:53: 2000000 INFO @ Sat, 15 Jan 2022 19:11:57: 3000000 INFO @ Sat, 15 Jan 2022 19:12:01: 4000000 INFO @ Sat, 15 Jan 2022 19:12:05: 5000000 INFO @ Sat, 15 Jan 2022 19:12:10: 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 19:12:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.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 19:12:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:12:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:12:14: 7000000 INFO @ Sat, 15 Jan 2022 19:12:18: 1000000 INFO @ Sat, 15 Jan 2022 19:12:19: 8000000 INFO @ Sat, 15 Jan 2022 19:12:22: 2000000 INFO @ Sat, 15 Jan 2022 19:12:24: 9000000 INFO @ Sat, 15 Jan 2022 19:12:26: 3000000 INFO @ Sat, 15 Jan 2022 19:12:28: 10000000 INFO @ Sat, 15 Jan 2022 19:12:30: 4000000 INFO @ Sat, 15 Jan 2022 19:12:33: 11000000 INFO @ Sat, 15 Jan 2022 19:12:34: 5000000 INFO @ Sat, 15 Jan 2022 19:12:38: 12000000 INFO @ Sat, 15 Jan 2022 19:12:38: 6000000 INFO @ Sat, 15 Jan 2022 19:12:40: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:12:40: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:12:40: #1 total tags in treatment: 3733473 INFO @ Sat, 15 Jan 2022 19:12:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:12:40: #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 19:12:40: #1 tags after filtering in treatment: 2934828 INFO @ Sat, 15 Jan 2022 19:12:40: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 15 Jan 2022 19:12:40: #1 finished! INFO @ Sat, 15 Jan 2022 19:12:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:12:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:12:40: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:12:40: Too few paired peaks (29) 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 19:12:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.05_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/SRX11781128/SRX11781128.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:12:42: 7000000 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 19:12:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.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 19:12:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:12:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:12:46: 8000000 INFO @ Sat, 15 Jan 2022 19:12:48: 1000000 INFO @ Sat, 15 Jan 2022 19:12:50: 9000000 INFO @ Sat, 15 Jan 2022 19:12:53: 2000000 INFO @ Sat, 15 Jan 2022 19:12:54: 10000000 INFO @ Sat, 15 Jan 2022 19:12:57: 3000000 INFO @ Sat, 15 Jan 2022 19:12:58: 11000000 INFO @ Sat, 15 Jan 2022 19:13:01: 4000000 INFO @ Sat, 15 Jan 2022 19:13:02: 12000000 INFO @ Sat, 15 Jan 2022 19:13:04: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:13:04: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:13:04: #1 total tags in treatment: 3733473 INFO @ Sat, 15 Jan 2022 19:13:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:13:04: #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 19:13:04: #1 tags after filtering in treatment: 2934828 INFO @ Sat, 15 Jan 2022 19:13:04: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 15 Jan 2022 19:13:04: #1 finished! INFO @ Sat, 15 Jan 2022 19:13:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:13:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:13:04: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:13:04: Too few paired peaks (29) 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 19:13:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.10_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/SRX11781128/SRX11781128.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:13:06: 5000000 INFO @ Sat, 15 Jan 2022 19:13:10: 6000000 INFO @ Sat, 15 Jan 2022 19:13:14: 7000000 INFO @ Sat, 15 Jan 2022 19:13:19: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:13:23: 9000000 INFO @ Sat, 15 Jan 2022 19:13:27: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:13:32: 11000000 INFO @ Sat, 15 Jan 2022 19:13:36: 12000000 INFO @ Sat, 15 Jan 2022 19:13:38: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:13:38: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:13:38: #1 total tags in treatment: 3733473 INFO @ Sat, 15 Jan 2022 19:13:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:13:38: #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 19:13:38: #1 tags after filtering in treatment: 2934828 INFO @ Sat, 15 Jan 2022 19:13:38: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 15 Jan 2022 19:13:38: #1 finished! INFO @ Sat, 15 Jan 2022 19:13:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:13:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:13:39: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 19:13:39: Too few paired peaks (29) 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 19:13:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.20_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/SRX11781128/SRX11781128.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781128/SRX11781128.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling