Job ID = 14520976 SRX = SRX8245454 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13624696 spots for SRR11684665/SRR11684665.sra Written 13624696 spots for SRR11684665/SRR11684665.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: 00:15:54 13624696 reads; of these: 13624696 (100.00%) were paired; of these: 8033400 (58.96%) aligned concordantly 0 times 4047854 (29.71%) aligned concordantly exactly 1 time 1543442 (11.33%) aligned concordantly >1 times ---- 8033400 pairs aligned concordantly 0 times; of these: 58001 (0.72%) aligned discordantly 1 time ---- 7975399 pairs aligned 0 times concordantly or discordantly; of these: 15950798 mates make up the pairs; of these: 8942374 (56.06%) aligned 0 times 5018729 (31.46%) aligned exactly 1 time 1989695 (12.47%) aligned >1 times 67.18% overall alignment rate Time searching: 00:15:54 Overall time: 00:15:54 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] 301557 / 5648158 = 0.0534 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 20:35:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.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 20:35:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:35:35: 1000000 INFO @ Sat, 15 Jan 2022 20:35:40: 2000000 INFO @ Sat, 15 Jan 2022 20:35:46: 3000000 INFO @ Sat, 15 Jan 2022 20:35:52: 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 20:35:58: 5000000 INFO @ Sat, 15 Jan 2022 20:35:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.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 20:35:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:35:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:36:04: 6000000 INFO @ Sat, 15 Jan 2022 20:36:04: 1000000 INFO @ Sat, 15 Jan 2022 20:36:10: 2000000 INFO @ Sat, 15 Jan 2022 20:36:10: 7000000 INFO @ Sat, 15 Jan 2022 20:36:15: 3000000 INFO @ Sat, 15 Jan 2022 20:36:17: 8000000 INFO @ Sat, 15 Jan 2022 20:36:21: 4000000 INFO @ Sat, 15 Jan 2022 20:36:23: 9000000 INFO @ Sat, 15 Jan 2022 20:36:26: 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 20:36:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.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 20:36:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:36:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:36:29: 10000000 INFO @ Sat, 15 Jan 2022 20:36:31: 6000000 INFO @ Sat, 15 Jan 2022 20:36:35: 1000000 INFO @ Sat, 15 Jan 2022 20:36:35: 11000000 INFO @ Sat, 15 Jan 2022 20:36:37: 7000000 INFO @ Sat, 15 Jan 2022 20:36:41: 2000000 INFO @ Sat, 15 Jan 2022 20:36:42: 12000000 INFO @ Sat, 15 Jan 2022 20:36:42: 8000000 INFO @ Sat, 15 Jan 2022 20:36:47: 3000000 INFO @ Sat, 15 Jan 2022 20:36:48: 9000000 INFO @ Sat, 15 Jan 2022 20:36:48: 13000000 INFO @ Sat, 15 Jan 2022 20:36:53: 10000000 INFO @ Sat, 15 Jan 2022 20:36:54: 4000000 INFO @ Sat, 15 Jan 2022 20:36:54: 14000000 INFO @ Sat, 15 Jan 2022 20:36:59: 11000000 INFO @ Sat, 15 Jan 2022 20:37:00: 5000000 INFO @ Sat, 15 Jan 2022 20:37:01: 15000000 INFO @ Sat, 15 Jan 2022 20:37:04: 12000000 INFO @ Sat, 15 Jan 2022 20:37:06: 6000000 INFO @ Sat, 15 Jan 2022 20:37:07: 16000000 INFO @ Sat, 15 Jan 2022 20:37:10: 13000000 INFO @ Sat, 15 Jan 2022 20:37:13: 7000000 INFO @ Sat, 15 Jan 2022 20:37:13: 17000000 INFO @ Sat, 15 Jan 2022 20:37:15: 14000000 INFO @ Sat, 15 Jan 2022 20:37:17: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:37:17: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:37:17: #1 total tags in treatment: 5302459 INFO @ Sat, 15 Jan 2022 20:37:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:37:17: #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 20:37:18: #1 tags after filtering in treatment: 1893001 INFO @ Sat, 15 Jan 2022 20:37:18: #1 Redundant rate of treatment: 0.64 INFO @ Sat, 15 Jan 2022 20:37:18: #1 finished! INFO @ Sat, 15 Jan 2022 20:37:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:37:18: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:37:18: #2 number of paired peaks: 56 WARNING @ Sat, 15 Jan 2022 20:37:18: Too few paired peaks (56) 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 20:37:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.05_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/SRX8245454/SRX8245454.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:37:19: 8000000 INFO @ Sat, 15 Jan 2022 20:37:20: 15000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:37:25: 9000000 INFO @ Sat, 15 Jan 2022 20:37:26: 16000000 INFO @ Sat, 15 Jan 2022 20:37:31: 17000000 INFO @ Sat, 15 Jan 2022 20:37:32: 10000000 INFO @ Sat, 15 Jan 2022 20:37:35: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:37:35: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:37:35: #1 total tags in treatment: 5302459 INFO @ Sat, 15 Jan 2022 20:37:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:37:35: #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 20:37:35: #1 tags after filtering in treatment: 1893001 INFO @ Sat, 15 Jan 2022 20:37:35: #1 Redundant rate of treatment: 0.64 INFO @ Sat, 15 Jan 2022 20:37:35: #1 finished! INFO @ Sat, 15 Jan 2022 20:37:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:37:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:37:35: #2 number of paired peaks: 56 WARNING @ Sat, 15 Jan 2022 20:37:35: Too few paired peaks (56) 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 20:37:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.10_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/SRX8245454/SRX8245454.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:37:38: 11000000 INFO @ Sat, 15 Jan 2022 20:37:43: 12000000 INFO @ Sat, 15 Jan 2022 20:37:49: 13000000 INFO @ Sat, 15 Jan 2022 20:37:55: 14000000 INFO @ Sat, 15 Jan 2022 20:38:01: 15000000 INFO @ Sat, 15 Jan 2022 20:38:06: 16000000 INFO @ Sat, 15 Jan 2022 20:38:12: 17000000 INFO @ Sat, 15 Jan 2022 20:38:16: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:38:16: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:38:16: #1 total tags in treatment: 5302459 INFO @ Sat, 15 Jan 2022 20:38:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:38:16: #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 20:38:16: #1 tags after filtering in treatment: 1893001 INFO @ Sat, 15 Jan 2022 20:38:16: #1 Redundant rate of treatment: 0.64 INFO @ Sat, 15 Jan 2022 20:38:16: #1 finished! INFO @ Sat, 15 Jan 2022 20:38:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:38:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:38:16: #2 number of paired peaks: 56 WARNING @ Sat, 15 Jan 2022 20:38:16: Too few paired peaks (56) 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 20:38:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.20_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/SRX8245454/SRX8245454.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245454/SRX8245454.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling