Job ID = 14519813 SRX = SRX9786274 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10127747 spots for SRR13362138/SRR13362138.sra Written 10127747 spots for SRR13362138/SRR13362138.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: 00:05:31 10127747 reads; of these: 10127747 (100.00%) were paired; of these: 5791580 (57.19%) aligned concordantly 0 times 3742450 (36.95%) aligned concordantly exactly 1 time 593717 (5.86%) aligned concordantly >1 times ---- 5791580 pairs aligned concordantly 0 times; of these: 60554 (1.05%) aligned discordantly 1 time ---- 5731026 pairs aligned 0 times concordantly or discordantly; of these: 11462052 mates make up the pairs; of these: 8270792 (72.16%) aligned 0 times 2695121 (23.51%) aligned exactly 1 time 496139 (4.33%) aligned >1 times 59.17% overall alignment rate Time searching: 00:05:31 Overall time: 00:05:31 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 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] 444527 / 4395303 = 0.1011 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 17:58:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.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 17:58:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:58:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:58:19: 1000000 INFO @ Sat, 15 Jan 2022 17:58:25: 2000000 INFO @ Sat, 15 Jan 2022 17:58:30: 3000000 INFO @ Sat, 15 Jan 2022 17:58:36: 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 17:58:42: 5000000 INFO @ Sat, 15 Jan 2022 17:58:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.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 17:58:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:58:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:58:49: 6000000 INFO @ Sat, 15 Jan 2022 17:58:49: 1000000 INFO @ Sat, 15 Jan 2022 17:58:55: 7000000 INFO @ Sat, 15 Jan 2022 17:58:56: 2000000 INFO @ Sat, 15 Jan 2022 17:59:01: 8000000 INFO @ Sat, 15 Jan 2022 17:59:02: 3000000 INFO @ Sat, 15 Jan 2022 17:59:06: 9000000 INFO @ Sat, 15 Jan 2022 17:59:08: 4000000 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 17:59:13: 10000000 INFO @ Sat, 15 Jan 2022 17:59:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.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 17:59:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:59:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:59:14: 5000000 INFO @ Sat, 15 Jan 2022 17:59:19: 1000000 INFO @ Sat, 15 Jan 2022 17:59:19: 11000000 INFO @ Sat, 15 Jan 2022 17:59:20: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:59:20: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:59:20: #1 total tags in treatment: 3894142 INFO @ Sat, 15 Jan 2022 17:59:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:59:20: #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 17:59:20: #1 tags after filtering in treatment: 3008503 INFO @ Sat, 15 Jan 2022 17:59:20: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 17:59:20: #1 finished! INFO @ Sat, 15 Jan 2022 17:59:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:59:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:59:20: #2 number of paired peaks: 56 WARNING @ Sat, 15 Jan 2022 17:59:20: Too few paired peaks (56) 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 17:59:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.05_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/SRX9786274/SRX9786274.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:59:21: 6000000 INFO @ Sat, 15 Jan 2022 17:59:24: 2000000 INFO @ Sat, 15 Jan 2022 17:59:27: 7000000 INFO @ Sat, 15 Jan 2022 17:59:30: 3000000 INFO @ Sat, 15 Jan 2022 17:59:33: 8000000 INFO @ Sat, 15 Jan 2022 17:59:36: 4000000 INFO @ Sat, 15 Jan 2022 17:59:38: 9000000 INFO @ Sat, 15 Jan 2022 17:59:41: 5000000 INFO @ Sat, 15 Jan 2022 17:59:44: 10000000 INFO @ Sat, 15 Jan 2022 17:59:47: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:59:50: 11000000 INFO @ Sat, 15 Jan 2022 17:59:51: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:59:51: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:59:51: #1 total tags in treatment: 3894142 INFO @ Sat, 15 Jan 2022 17:59:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:59:51: #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 17:59:51: #1 tags after filtering in treatment: 3008503 INFO @ Sat, 15 Jan 2022 17:59:51: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 17:59:51: #1 finished! INFO @ Sat, 15 Jan 2022 17:59:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:59:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:59:51: #2 number of paired peaks: 56 WARNING @ Sat, 15 Jan 2022 17:59:51: Too few paired peaks (56) 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 17:59:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.10_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/SRX9786274/SRX9786274.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:59:52: 7000000 INFO @ Sat, 15 Jan 2022 17:59:58: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:00:04: 9000000 INFO @ Sat, 15 Jan 2022 18:00:10: 10000000 INFO @ Sat, 15 Jan 2022 18:00:15: 11000000 INFO @ Sat, 15 Jan 2022 18:00:15: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:00:15: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:00:15: #1 total tags in treatment: 3894142 INFO @ Sat, 15 Jan 2022 18:00:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:00:15: #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 18:00:15: #1 tags after filtering in treatment: 3008503 INFO @ Sat, 15 Jan 2022 18:00:15: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 18:00:15: #1 finished! INFO @ Sat, 15 Jan 2022 18:00:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:00:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:00:16: #2 number of paired peaks: 56 WARNING @ Sat, 15 Jan 2022 18:00:16: Too few paired peaks (56) 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 18:00:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.20_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/SRX9786274/SRX9786274.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786274/SRX9786274.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling