Job ID = 14521637 SRX = SRX9399019 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3775027 spots for SRR12935301/SRR12935301.sra Written 3775027 spots for SRR12935301/SRR12935301.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: 00:02:03 3775027 reads; of these: 3775027 (100.00%) were paired; of these: 801805 (21.24%) aligned concordantly 0 times 2519203 (66.73%) aligned concordantly exactly 1 time 454019 (12.03%) aligned concordantly >1 times ---- 801805 pairs aligned concordantly 0 times; of these: 291700 (36.38%) aligned discordantly 1 time ---- 510105 pairs aligned 0 times concordantly or discordantly; of these: 1020210 mates make up the pairs; of these: 594939 (58.32%) aligned 0 times 278805 (27.33%) aligned exactly 1 time 146466 (14.36%) aligned >1 times 92.12% overall alignment rate Time searching: 00:02:03 Overall time: 00:02:03 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] 272377 / 3027878 = 0.0900 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 21:20:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.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 21:20:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:20:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:20:47: 1000000 INFO @ Sat, 15 Jan 2022 21:20:51: 2000000 INFO @ Sat, 15 Jan 2022 21:20:55: 3000000 INFO @ Sat, 15 Jan 2022 21:20:59: 4000000 INFO @ Sat, 15 Jan 2022 21:21:03: 5000000 INFO @ Sat, 15 Jan 2022 21:21:06: 6000000 INFO @ Sat, 15 Jan 2022 21:21:08: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 21:21:08: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 21:21:08: #1 total tags in treatment: 2702474 INFO @ Sat, 15 Jan 2022 21:21:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:21:08: #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 21:21:08: #1 tags after filtering in treatment: 2029165 INFO @ Sat, 15 Jan 2022 21:21:08: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 21:21:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:21:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:21:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:21:08: #2 number of paired peaks: 24 WARNING @ Sat, 15 Jan 2022 21:21:08: Too few paired peaks (24) 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 21:21:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.05_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/SRX9399019/SRX9399019.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.05_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 21:21:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.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 21:21:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:17: 1000000 INFO @ Sat, 15 Jan 2022 21:21:21: 2000000 INFO @ Sat, 15 Jan 2022 21:21:25: 3000000 INFO @ Sat, 15 Jan 2022 21:21:29: 4000000 INFO @ Sat, 15 Jan 2022 21:21:33: 5000000 INFO @ Sat, 15 Jan 2022 21:21:37: 6000000 INFO @ Sat, 15 Jan 2022 21:21:38: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 21:21:38: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 21:21:38: #1 total tags in treatment: 2702474 INFO @ Sat, 15 Jan 2022 21:21:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:21:38: #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 21:21:38: #1 tags after filtering in treatment: 2029165 INFO @ Sat, 15 Jan 2022 21:21:38: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 21:21:38: #1 finished! INFO @ Sat, 15 Jan 2022 21:21:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:21:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:21:39: #2 number of paired peaks: 24 WARNING @ Sat, 15 Jan 2022 21:21:39: Too few paired peaks (24) 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 21:21:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.10_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/SRX9399019/SRX9399019.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.10_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 21:21:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.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 21:21:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:48: 1000000 INFO @ Sat, 15 Jan 2022 21:21:52: 2000000 INFO @ Sat, 15 Jan 2022 21:21:57: 3000000 INFO @ Sat, 15 Jan 2022 21:22:02: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:22:07: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:22:11: 6000000 INFO @ Sat, 15 Jan 2022 21:22:13: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 21:22:13: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 21:22:13: #1 total tags in treatment: 2702474 INFO @ Sat, 15 Jan 2022 21:22:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:22:13: #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 21:22:13: #1 tags after filtering in treatment: 2029165 INFO @ Sat, 15 Jan 2022 21:22:13: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 21:22:13: #1 finished! INFO @ Sat, 15 Jan 2022 21:22:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:22:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:22:14: #2 number of paired peaks: 24 WARNING @ Sat, 15 Jan 2022 21:22:14: Too few paired peaks (24) 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 21:22:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.20_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/SRX9399019/SRX9399019.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399019/SRX9399019.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling