Job ID = 14520956 SRX = SRX8245332 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12700288 spots for SRR11684527/SRR11684527.sra Written 12700288 spots for SRR11684527/SRR11684527.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: 00:05:59 12700288 reads; of these: 12700288 (100.00%) were paired; of these: 8570507 (67.48%) aligned concordantly 0 times 3607682 (28.41%) aligned concordantly exactly 1 time 522099 (4.11%) aligned concordantly >1 times ---- 8570507 pairs aligned concordantly 0 times; of these: 140617 (1.64%) aligned discordantly 1 time ---- 8429890 pairs aligned 0 times concordantly or discordantly; of these: 16859780 mates make up the pairs; of these: 8605714 (51.04%) aligned 0 times 7107797 (42.16%) aligned exactly 1 time 1146269 (6.80%) aligned >1 times 66.12% overall alignment rate Time searching: 00:05:59 Overall time: 00:05:59 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_sort_core] merging from 8 files... [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] 113341 / 4269900 = 0.0265 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 20:23:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.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 20:23:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:23:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:23:12: 1000000 INFO @ Sat, 15 Jan 2022 20:23:17: 2000000 INFO @ Sat, 15 Jan 2022 20:23:23: 3000000 INFO @ Sat, 15 Jan 2022 20:23:29: 4000000 INFO @ Sat, 15 Jan 2022 20:23:34: 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 20:23:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.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 20:23:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:23:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:23:40: 6000000 INFO @ Sat, 15 Jan 2022 20:23:41: 1000000 INFO @ Sat, 15 Jan 2022 20:23:46: 7000000 INFO @ Sat, 15 Jan 2022 20:23:47: 2000000 INFO @ Sat, 15 Jan 2022 20:23:52: 3000000 INFO @ Sat, 15 Jan 2022 20:23:52: 8000000 INFO @ Sat, 15 Jan 2022 20:23:57: 4000000 INFO @ Sat, 15 Jan 2022 20:23:58: 9000000 INFO @ Sat, 15 Jan 2022 20:24:02: 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 20:24:04: 10000000 INFO @ Sat, 15 Jan 2022 20:24:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.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 20:24:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:24:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:24:08: 6000000 INFO @ Sat, 15 Jan 2022 20:24:10: 11000000 INFO @ Sat, 15 Jan 2022 20:24:12: 1000000 INFO @ Sat, 15 Jan 2022 20:24:13: 7000000 INFO @ Sat, 15 Jan 2022 20:24:16: 12000000 INFO @ Sat, 15 Jan 2022 20:24:18: 2000000 INFO @ Sat, 15 Jan 2022 20:24:19: 8000000 INFO @ Sat, 15 Jan 2022 20:24:22: 13000000 INFO @ Sat, 15 Jan 2022 20:24:24: 9000000 INFO @ Sat, 15 Jan 2022 20:24:24: 3000000 INFO @ Sat, 15 Jan 2022 20:24:29: 14000000 INFO @ Sat, 15 Jan 2022 20:24:29: 10000000 INFO @ Sat, 15 Jan 2022 20:24:30: 4000000 INFO @ Sat, 15 Jan 2022 20:24:35: 15000000 INFO @ Sat, 15 Jan 2022 20:24:35: 11000000 INFO @ Sat, 15 Jan 2022 20:24:37: 5000000 INFO @ Sat, 15 Jan 2022 20:24:40: 12000000 INFO @ Sat, 15 Jan 2022 20:24:41: 16000000 INFO @ Sat, 15 Jan 2022 20:24:43: 6000000 INFO @ Sat, 15 Jan 2022 20:24:44: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 20:24:44: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 20:24:44: #1 total tags in treatment: 4017937 INFO @ Sat, 15 Jan 2022 20:24:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:24:44: #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 20:24:44: #1 tags after filtering in treatment: 3374045 INFO @ Sat, 15 Jan 2022 20:24:44: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:24:44: #1 finished! INFO @ Sat, 15 Jan 2022 20:24:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:24:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:24:44: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:24:44: Too few paired peaks (32) 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 20:24:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.05_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/SRX8245332/SRX8245332.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:24:46: 13000000 INFO @ Sat, 15 Jan 2022 20:24:49: 7000000 INFO @ Sat, 15 Jan 2022 20:24:51: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:24:55: 8000000 INFO @ Sat, 15 Jan 2022 20:24:56: 15000000 INFO @ Sat, 15 Jan 2022 20:25:01: 9000000 INFO @ Sat, 15 Jan 2022 20:25:02: 16000000 INFO @ Sat, 15 Jan 2022 20:25:05: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 20:25:05: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 20:25:05: #1 total tags in treatment: 4017937 INFO @ Sat, 15 Jan 2022 20:25:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:25:05: #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 20:25:05: #1 tags after filtering in treatment: 3374045 INFO @ Sat, 15 Jan 2022 20:25:05: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:25:05: #1 finished! INFO @ Sat, 15 Jan 2022 20:25:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:25:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:25:05: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:25:05: Too few paired peaks (32) 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 20:25:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.10_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/SRX8245332/SRX8245332.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:25:07: 10000000 INFO @ Sat, 15 Jan 2022 20:25:13: 11000000 INFO @ Sat, 15 Jan 2022 20:25:18: 12000000 INFO @ Sat, 15 Jan 2022 20:25:24: 13000000 INFO @ Sat, 15 Jan 2022 20:25:29: 14000000 INFO @ Sat, 15 Jan 2022 20:25:35: 15000000 INFO @ Sat, 15 Jan 2022 20:25:40: 16000000 INFO @ Sat, 15 Jan 2022 20:25:43: #1 tag size is determined as 30 bps INFO @ Sat, 15 Jan 2022 20:25:43: #1 tag size = 30 INFO @ Sat, 15 Jan 2022 20:25:43: #1 total tags in treatment: 4017937 INFO @ Sat, 15 Jan 2022 20:25:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:25:43: #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 20:25:43: #1 tags after filtering in treatment: 3374045 INFO @ Sat, 15 Jan 2022 20:25:43: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:25:43: #1 finished! INFO @ Sat, 15 Jan 2022 20:25:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:25:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:25:43: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 20:25:43: Too few paired peaks (32) 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 20:25:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.20_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/SRX8245332/SRX8245332.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245332/SRX8245332.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling