Job ID = 14521794 SRX = SRX9399065 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5815047 spots for SRR12935346/SRR12935346.sra Written 5815047 spots for SRR12935346/SRR12935346.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: 00:02:32 5815047 reads; of these: 5815047 (100.00%) were paired; of these: 915566 (15.74%) aligned concordantly 0 times 4319778 (74.29%) aligned concordantly exactly 1 time 579703 (9.97%) aligned concordantly >1 times ---- 915566 pairs aligned concordantly 0 times; of these: 205010 (22.39%) aligned discordantly 1 time ---- 710556 pairs aligned 0 times concordantly or discordantly; of these: 1421112 mates make up the pairs; of these: 1075877 (75.71%) aligned 0 times 261333 (18.39%) aligned exactly 1 time 83902 (5.90%) aligned >1 times 90.75% overall alignment rate Time searching: 00:02:32 Overall time: 00:02:32 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] 380388 / 5020127 = 0.0758 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 21:41:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.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 21:41:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:41:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:41:39: 1000000 INFO @ Sat, 15 Jan 2022 21:41:45: 2000000 INFO @ Sat, 15 Jan 2022 21:41:50: 3000000 INFO @ Sat, 15 Jan 2022 21:41:55: 4000000 INFO @ Sat, 15 Jan 2022 21:42:00: 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 21:42:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.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 21:42:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:05: 6000000 INFO @ Sat, 15 Jan 2022 21:42:09: 1000000 INFO @ Sat, 15 Jan 2022 21:42:10: 7000000 INFO @ Sat, 15 Jan 2022 21:42:15: 2000000 INFO @ Sat, 15 Jan 2022 21:42:15: 8000000 INFO @ Sat, 15 Jan 2022 21:42:20: 3000000 INFO @ Sat, 15 Jan 2022 21:42:21: 9000000 INFO @ Sat, 15 Jan 2022 21:42:25: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:42:25: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:42:25: #1 total tags in treatment: 4522631 INFO @ Sat, 15 Jan 2022 21:42:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:25: #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 21:42:25: #1 tags after filtering in treatment: 3153656 INFO @ Sat, 15 Jan 2022 21:42:25: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:42:25: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:25: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:42:25: Too few paired peaks (1) 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 21:42:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.05_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/SRX9399065/SRX9399065.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:42:26: 4000000 INFO @ Sat, 15 Jan 2022 21:42:31: 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 21:42:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.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 21:42:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:36: 6000000 INFO @ Sat, 15 Jan 2022 21:42:40: 1000000 INFO @ Sat, 15 Jan 2022 21:42:41: 7000000 INFO @ Sat, 15 Jan 2022 21:42:45: 2000000 INFO @ Sat, 15 Jan 2022 21:42:46: 8000000 INFO @ Sat, 15 Jan 2022 21:42:50: 3000000 INFO @ Sat, 15 Jan 2022 21:42:52: 9000000 INFO @ Sat, 15 Jan 2022 21:42:56: 4000000 INFO @ Sat, 15 Jan 2022 21:42:56: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:42:56: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:42:56: #1 total tags in treatment: 4522631 INFO @ Sat, 15 Jan 2022 21:42:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:42:56: #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 21:42:56: #1 tags after filtering in treatment: 3153656 INFO @ Sat, 15 Jan 2022 21:42:56: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:42:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:42:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:42:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:42:56: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:42:56: Too few paired peaks (1) 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 21:42:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.10_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/SRX9399065/SRX9399065.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:01: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:43:05: 6000000 INFO @ Sat, 15 Jan 2022 21:43:10: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:43:14: 8000000 INFO @ Sat, 15 Jan 2022 21:43:19: 9000000 INFO @ Sat, 15 Jan 2022 21:43:22: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:43:22: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:43:22: #1 total tags in treatment: 4522631 INFO @ Sat, 15 Jan 2022 21:43:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:22: #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 21:43:23: #1 tags after filtering in treatment: 3153656 INFO @ Sat, 15 Jan 2022 21:43:23: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:43:23: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:23: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:43:23: Too few paired peaks (1) 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 21:43:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.20_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/SRX9399065/SRX9399065.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399065/SRX9399065.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling