Job ID = 14521380 SRX = SRX9385116 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 2409419 spots for SRR12920587/SRR12920587.sra Written 2409419 spots for SRR12920587/SRR12920587.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: 00:01:04 2409419 reads; of these: 2409419 (100.00%) were paired; of these: 881811 (36.60%) aligned concordantly 0 times 1201025 (49.85%) aligned concordantly exactly 1 time 326583 (13.55%) aligned concordantly >1 times ---- 881811 pairs aligned concordantly 0 times; of these: 23613 (2.68%) aligned discordantly 1 time ---- 858198 pairs aligned 0 times concordantly or discordantly; of these: 1716396 mates make up the pairs; of these: 1693234 (98.65%) aligned 0 times 7794 (0.45%) aligned exactly 1 time 15368 (0.90%) aligned >1 times 64.86% overall alignment rate Time searching: 00:01:04 Overall time: 00:01:04 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] 247311 / 1549039 = 0.1597 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 20:56:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.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 20:56:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:56:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:56:40: 1000000 INFO @ Sat, 15 Jan 2022 20:56:46: 2000000 INFO @ Sat, 15 Jan 2022 20:56:49: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:56:49: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:56:49: #1 total tags in treatment: 1282527 INFO @ Sat, 15 Jan 2022 20:56:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:56:49: #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 20:56:49: #1 tags after filtering in treatment: 1034312 INFO @ Sat, 15 Jan 2022 20:56:49: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:56:49: #1 finished! INFO @ Sat, 15 Jan 2022 20:56:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:56:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:56:49: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 20:56:49: Too few paired peaks (34) 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 20:56:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.05_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/SRX9385116/SRX9385116.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 20:57:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.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 20:57:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:57:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:57:09: 1000000 INFO @ Sat, 15 Jan 2022 20:57:15: 2000000 INFO @ Sat, 15 Jan 2022 20:57:18: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:57:18: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:57:18: #1 total tags in treatment: 1282527 INFO @ Sat, 15 Jan 2022 20:57:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:57:18: #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 20:57:18: #1 tags after filtering in treatment: 1034312 INFO @ Sat, 15 Jan 2022 20:57:18: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:57:18: #1 finished! INFO @ Sat, 15 Jan 2022 20:57:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:57:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:57:18: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 20:57:18: Too few paired peaks (34) 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 20:57:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.10_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/SRX9385116/SRX9385116.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 20:57:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.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 20:57:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:57:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:57:39: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:57:45: 2000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:57:48: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:57:48: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:57:48: #1 total tags in treatment: 1282527 INFO @ Sat, 15 Jan 2022 20:57:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:57:48: #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 20:57:48: #1 tags after filtering in treatment: 1034312 INFO @ Sat, 15 Jan 2022 20:57:48: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:57:48: #1 finished! INFO @ Sat, 15 Jan 2022 20:57:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:57:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:57:48: #2 number of paired peaks: 34 WARNING @ Sat, 15 Jan 2022 20:57:48: Too few paired peaks (34) 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 20:57:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.20_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/SRX9385116/SRX9385116.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9385116/SRX9385116.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling