Job ID = 14521705 SRX = SRX9399155 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6926479 spots for SRR12935436/SRR12935436.sra Written 6926479 spots for SRR12935436/SRR12935436.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: 00:02:46 6926479 reads; of these: 6926479 (100.00%) were paired; of these: 1521278 (21.96%) aligned concordantly 0 times 4816215 (69.53%) aligned concordantly exactly 1 time 588986 (8.50%) aligned concordantly >1 times ---- 1521278 pairs aligned concordantly 0 times; of these: 126920 (8.34%) aligned discordantly 1 time ---- 1394358 pairs aligned 0 times concordantly or discordantly; of these: 2788716 mates make up the pairs; of these: 2549893 (91.44%) aligned 0 times 186191 (6.68%) aligned exactly 1 time 52632 (1.89%) aligned >1 times 81.59% overall alignment rate Time searching: 00:02:46 Overall time: 00:02:46 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] 883259 / 5486627 = 0.1610 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 21:31:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.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 21:31:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:31:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:32:02: 1000000 INFO @ Sat, 15 Jan 2022 21:32:07: 2000000 INFO @ Sat, 15 Jan 2022 21:32:12: 3000000 INFO @ Sat, 15 Jan 2022 21:32:17: 4000000 INFO @ Sat, 15 Jan 2022 21:32:22: 5000000 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 21:32:27: 6000000 INFO @ Sat, 15 Jan 2022 21:32:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.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 21:32:27: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:32:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:32:32: 7000000 INFO @ Sat, 15 Jan 2022 21:32:33: 1000000 INFO @ Sat, 15 Jan 2022 21:32:38: 8000000 INFO @ Sat, 15 Jan 2022 21:32:38: 2000000 INFO @ Sat, 15 Jan 2022 21:32:43: 9000000 INFO @ Sat, 15 Jan 2022 21:32:44: 3000000 INFO @ Sat, 15 Jan 2022 21:32:46: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:32:46: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:32:46: #1 total tags in treatment: 4526866 INFO @ Sat, 15 Jan 2022 21:32:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:32:46: #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 21:32:46: #1 tags after filtering in treatment: 3162350 INFO @ Sat, 15 Jan 2022 21:32:46: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:32:46: #1 finished! INFO @ Sat, 15 Jan 2022 21:32:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:32:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:32:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:32:46: Too few paired peaks (0) 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 21:32:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.05_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/SRX9399155/SRX9399155.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:32:49: 4000000 INFO @ Sat, 15 Jan 2022 21:32:54: 5000000 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 21:32:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.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 21:32:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:32:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:32:59: 6000000 INFO @ Sat, 15 Jan 2022 21:33:02: 1000000 INFO @ Sat, 15 Jan 2022 21:33:04: 7000000 INFO @ Sat, 15 Jan 2022 21:33:07: 2000000 INFO @ Sat, 15 Jan 2022 21:33:09: 8000000 INFO @ Sat, 15 Jan 2022 21:33:12: 3000000 INFO @ Sat, 15 Jan 2022 21:33:14: 9000000 INFO @ Sat, 15 Jan 2022 21:33:16: 4000000 INFO @ Sat, 15 Jan 2022 21:33:17: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:33:17: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:33:17: #1 total tags in treatment: 4526866 INFO @ Sat, 15 Jan 2022 21:33:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:17: #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 21:33:17: #1 tags after filtering in treatment: 3162350 INFO @ Sat, 15 Jan 2022 21:33:17: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:33:17: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:17: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:17: Too few paired peaks (0) 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 21:33:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.10_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/SRX9399155/SRX9399155.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:33:21: 5000000 INFO @ Sat, 15 Jan 2022 21:33:25: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:33:30: 7000000 INFO @ Sat, 15 Jan 2022 21:33:34: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:33:39: 9000000 INFO @ Sat, 15 Jan 2022 21:33:42: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:33:42: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:33:42: #1 total tags in treatment: 4526866 INFO @ Sat, 15 Jan 2022 21:33:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:42: #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 21:33:42: #1 tags after filtering in treatment: 3162350 INFO @ Sat, 15 Jan 2022 21:33:42: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:33:42: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:42: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:42: Too few paired peaks (0) 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 21:33:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.20_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/SRX9399155/SRX9399155.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399155/SRX9399155.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling