Job ID = 14520275 SRX = SRX8926527 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8091247 spots for SRR12430724/SRR12430724.sra Written 8091247 spots for SRR12430724/SRR12430724.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 8091247 reads; of these: 8091247 (100.00%) were paired; of these: 1886512 (23.32%) aligned concordantly 0 times 4444191 (54.93%) aligned concordantly exactly 1 time 1760544 (21.76%) aligned concordantly >1 times ---- 1886512 pairs aligned concordantly 0 times; of these: 32005 (1.70%) aligned discordantly 1 time ---- 1854507 pairs aligned 0 times concordantly or discordantly; of these: 3709014 mates make up the pairs; of these: 3610877 (97.35%) aligned 0 times 41879 (1.13%) aligned exactly 1 time 56258 (1.52%) aligned >1 times 77.69% 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] 1308396 / 6235300 = 0.2098 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 18:59:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.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 18:59:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:59:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:59:44: 1000000 INFO @ Sat, 15 Jan 2022 18:59:50: 2000000 INFO @ Sat, 15 Jan 2022 18:59:56: 3000000 INFO @ Sat, 15 Jan 2022 19:00:03: 4000000 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 19:00:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.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 19:00:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:00:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:00:09: 5000000 INFO @ Sat, 15 Jan 2022 19:00:13: 1000000 INFO @ Sat, 15 Jan 2022 19:00:16: 6000000 INFO @ Sat, 15 Jan 2022 19:00:18: 2000000 INFO @ Sat, 15 Jan 2022 19:00:22: 7000000 INFO @ Sat, 15 Jan 2022 19:00:23: 3000000 INFO @ Sat, 15 Jan 2022 19:00:28: 4000000 INFO @ Sat, 15 Jan 2022 19:00:29: 8000000 INFO @ Sat, 15 Jan 2022 19:00:33: 5000000 INFO @ Sat, 15 Jan 2022 19:00:35: 9000000 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 19:00:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.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 19:00:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:00:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:00:38: 6000000 INFO @ Sat, 15 Jan 2022 19:00:41: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 19:00:41: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 19:00:41: #1 total tags in treatment: 4897393 INFO @ Sat, 15 Jan 2022 19:00:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:00:41: #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 19:00:41: #1 tags after filtering in treatment: 3369153 INFO @ Sat, 15 Jan 2022 19:00:41: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 19:00:41: #1 finished! INFO @ Sat, 15 Jan 2022 19:00:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:00:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:00:41: #2 number of paired peaks: 49 WARNING @ Sat, 15 Jan 2022 19:00:41: Too few paired peaks (49) 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 19:00:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.05_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/SRX8926527/SRX8926527.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:00:43: 1000000 INFO @ Sat, 15 Jan 2022 19:00:44: 7000000 INFO @ Sat, 15 Jan 2022 19:00:49: 2000000 INFO @ Sat, 15 Jan 2022 19:00:50: 8000000 INFO @ Sat, 15 Jan 2022 19:00:54: 3000000 INFO @ Sat, 15 Jan 2022 19:00:55: 9000000 INFO @ Sat, 15 Jan 2022 19:01:00: 4000000 INFO @ Sat, 15 Jan 2022 19:01:01: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 19:01:01: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 19:01:01: #1 total tags in treatment: 4897393 INFO @ Sat, 15 Jan 2022 19:01:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:01:01: #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 19:01:01: #1 tags after filtering in treatment: 3369153 INFO @ Sat, 15 Jan 2022 19:01:01: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 19:01:01: #1 finished! INFO @ Sat, 15 Jan 2022 19:01:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:01:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:01:01: #2 number of paired peaks: 49 WARNING @ Sat, 15 Jan 2022 19:01:01: Too few paired peaks (49) 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 19:01:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.10_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/SRX8926527/SRX8926527.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:01:05: 5000000 INFO @ Sat, 15 Jan 2022 19:01:10: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:01:15: 7000000 INFO @ Sat, 15 Jan 2022 19:01:20: 8000000 INFO @ Sat, 15 Jan 2022 19:01:25: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:01:30: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 19:01:30: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 19:01:30: #1 total tags in treatment: 4897393 INFO @ Sat, 15 Jan 2022 19:01:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:01:30: #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 19:01:30: #1 tags after filtering in treatment: 3369153 INFO @ Sat, 15 Jan 2022 19:01:30: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 19:01:30: #1 finished! INFO @ Sat, 15 Jan 2022 19:01:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:01:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:01:30: #2 number of paired peaks: 49 WARNING @ Sat, 15 Jan 2022 19:01:30: Too few paired peaks (49) 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 19:01:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.20_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/SRX8926527/SRX8926527.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926527/SRX8926527.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling