Job ID = 14521575 SRX = SRX9493778 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6646973 spots for SRR13043882/SRR13043882.sra Written 6646973 spots for SRR13043882/SRR13043882.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: 00:06:50 6646973 reads; of these: 6646973 (100.00%) were paired; of these: 362555 (5.45%) aligned concordantly 0 times 5501026 (82.76%) aligned concordantly exactly 1 time 783392 (11.79%) aligned concordantly >1 times ---- 362555 pairs aligned concordantly 0 times; of these: 137503 (37.93%) aligned discordantly 1 time ---- 225052 pairs aligned 0 times concordantly or discordantly; of these: 450104 mates make up the pairs; of these: 348438 (77.41%) aligned 0 times 54268 (12.06%) aligned exactly 1 time 47398 (10.53%) aligned >1 times 97.38% overall alignment rate Time searching: 00:06:50 Overall time: 00:06:50 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] 159231 / 6414115 = 0.0248 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 21:27:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.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 21:27:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:27:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:27:10: 1000000 INFO @ Sat, 15 Jan 2022 21:27:18: 2000000 INFO @ Sat, 15 Jan 2022 21:27:28: 3000000 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 21:27:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.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 21:27:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:27:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:27:38: 4000000 INFO @ Sat, 15 Jan 2022 21:27:42: 1000000 INFO @ Sat, 15 Jan 2022 21:27:48: 5000000 INFO @ Sat, 15 Jan 2022 21:27:50: 2000000 INFO @ Sat, 15 Jan 2022 21:27:57: 6000000 INFO @ Sat, 15 Jan 2022 21:27:58: 3000000 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 21:28:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.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 21:28:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:28:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:28:06: 4000000 INFO @ Sat, 15 Jan 2022 21:28:07: 7000000 INFO @ Sat, 15 Jan 2022 21:28:12: 1000000 INFO @ Sat, 15 Jan 2022 21:28:13: 5000000 INFO @ Sat, 15 Jan 2022 21:28:17: 8000000 INFO @ Sat, 15 Jan 2022 21:28:20: 6000000 INFO @ Sat, 15 Jan 2022 21:28:23: 2000000 INFO @ Sat, 15 Jan 2022 21:28:27: 9000000 INFO @ Sat, 15 Jan 2022 21:28:28: 7000000 INFO @ Sat, 15 Jan 2022 21:28:31: 3000000 INFO @ Sat, 15 Jan 2022 21:28:35: 8000000 INFO @ Sat, 15 Jan 2022 21:28:36: 10000000 INFO @ Sat, 15 Jan 2022 21:28:40: 4000000 INFO @ Sat, 15 Jan 2022 21:28:42: 9000000 INFO @ Sat, 15 Jan 2022 21:28:45: 11000000 INFO @ Sat, 15 Jan 2022 21:28:49: 5000000 INFO @ Sat, 15 Jan 2022 21:28:49: 10000000 INFO @ Sat, 15 Jan 2022 21:28:54: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:28:57: 11000000 INFO @ Sat, 15 Jan 2022 21:28:58: 6000000 INFO @ Sat, 15 Jan 2022 21:28:59: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:28:59: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:28:59: #1 total tags in treatment: 6126928 INFO @ Sat, 15 Jan 2022 21:28:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:28:59: #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 21:29:00: #1 tags after filtering in treatment: 4748259 INFO @ Sat, 15 Jan 2022 21:29:00: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 21:29:00: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:00: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:29:00: Too few paired peaks (27) 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 21:29:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.05_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/SRX9493778/SRX9493778.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:29:04: 12000000 INFO @ Sat, 15 Jan 2022 21:29:06: 7000000 INFO @ Sat, 15 Jan 2022 21:29:09: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:29:09: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:29:09: #1 total tags in treatment: 6126928 INFO @ Sat, 15 Jan 2022 21:29:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:09: #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 21:29:09: #1 tags after filtering in treatment: 4748259 INFO @ Sat, 15 Jan 2022 21:29:09: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 21:29:09: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:09: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:29:09: Too few paired peaks (27) 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 21:29:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.10_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/SRX9493778/SRX9493778.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:29:13: 8000000 INFO @ Sat, 15 Jan 2022 21:29:20: 9000000 INFO @ Sat, 15 Jan 2022 21:29:27: 10000000 INFO @ Sat, 15 Jan 2022 21:29:34: 11000000 INFO @ Sat, 15 Jan 2022 21:29:42: 12000000 INFO @ Sat, 15 Jan 2022 21:29:46: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:29:46: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:29:46: #1 total tags in treatment: 6126928 INFO @ Sat, 15 Jan 2022 21:29:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:46: #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 21:29:46: #1 tags after filtering in treatment: 4748259 INFO @ Sat, 15 Jan 2022 21:29:46: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 21:29:46: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:47: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:29:47: Too few paired peaks (27) 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 21:29:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.20_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/SRX9493778/SRX9493778.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493778/SRX9493778.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling