Job ID = 14521728 SRX = SRX9399048 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5495226 spots for SRR12935329/SRR12935329.sra Written 5495226 spots for SRR12935329/SRR12935329.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: 00:03:21 5495226 reads; of these: 5495226 (100.00%) were paired; of these: 608842 (11.08%) aligned concordantly 0 times 4339342 (78.97%) aligned concordantly exactly 1 time 547042 (9.95%) aligned concordantly >1 times ---- 608842 pairs aligned concordantly 0 times; of these: 200949 (33.01%) aligned discordantly 1 time ---- 407893 pairs aligned 0 times concordantly or discordantly; of these: 815786 mates make up the pairs; of these: 537882 (65.93%) aligned 0 times 207395 (25.42%) aligned exactly 1 time 70509 (8.64%) aligned >1 times 95.11% overall alignment rate Time searching: 00:03:21 Overall time: 00:03:21 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] 404481 / 4978913 = 0.0812 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 21:36:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.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 21:36:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:43: 1000000 INFO @ Sat, 15 Jan 2022 21:36:48: 2000000 INFO @ Sat, 15 Jan 2022 21:36:53: 3000000 INFO @ Sat, 15 Jan 2022 21:36:58: 4000000 INFO @ Sat, 15 Jan 2022 21:37:03: 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 21:37:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.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 21:37:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:37:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:37:08: 6000000 INFO @ Sat, 15 Jan 2022 21:37:13: 1000000 INFO @ Sat, 15 Jan 2022 21:37:13: 7000000 INFO @ Sat, 15 Jan 2022 21:37:19: 8000000 INFO @ Sat, 15 Jan 2022 21:37:19: 2000000 INFO @ Sat, 15 Jan 2022 21:37:24: 9000000 INFO @ Sat, 15 Jan 2022 21:37:24: 3000000 INFO @ Sat, 15 Jan 2022 21:37:27: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:37:27: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:37:27: #1 total tags in treatment: 4484259 INFO @ Sat, 15 Jan 2022 21:37:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:27: #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 21:37:28: #1 tags after filtering in treatment: 3049644 INFO @ Sat, 15 Jan 2022 21:37:28: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:37:28: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:28: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:37:28: Too few paired peaks (2) 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 21:37:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.05_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/SRX9399048/SRX9399048.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:37:30: 4000000 INFO @ Sat, 15 Jan 2022 21:37:35: 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 21:37:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.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 21:37:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:37:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:37:40: 6000000 INFO @ Sat, 15 Jan 2022 21:37:43: 1000000 INFO @ Sat, 15 Jan 2022 21:37:45: 7000000 INFO @ Sat, 15 Jan 2022 21:37:49: 2000000 INFO @ Sat, 15 Jan 2022 21:37:51: 8000000 INFO @ Sat, 15 Jan 2022 21:37:55: 3000000 INFO @ Sat, 15 Jan 2022 21:37:56: 9000000 INFO @ Sat, 15 Jan 2022 21:37:59: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:37:59: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:37:59: #1 total tags in treatment: 4484259 INFO @ Sat, 15 Jan 2022 21:37:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:59: #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 21:37:59: #1 tags after filtering in treatment: 3049644 INFO @ Sat, 15 Jan 2022 21:37:59: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:37:59: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:38:00: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:38:00: Too few paired peaks (2) 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 21:38:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:38:01: 4000000 INFO @ Sat, 15 Jan 2022 21:38:07: 5000000 INFO @ Sat, 15 Jan 2022 21:38:12: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:38:18: 7000000 INFO @ Sat, 15 Jan 2022 21:38:24: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:38:30: 9000000 INFO @ Sat, 15 Jan 2022 21:38:34: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:38:34: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:38:34: #1 total tags in treatment: 4484259 INFO @ Sat, 15 Jan 2022 21:38:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:38:34: #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 21:38:34: #1 tags after filtering in treatment: 3049644 INFO @ Sat, 15 Jan 2022 21:38:34: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:38:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:38:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:38:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:38:35: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 21:38:35: Too few paired peaks (2) 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 21:38:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.20_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/SRX9399048/SRX9399048.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399048/SRX9399048.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling