Job ID = 14520534 SRX = SRX9144936 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13173002 spots for SRR12664294/SRR12664294.sra Written 13173002 spots for SRR12664294/SRR12664294.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: 00:17:50 13173002 reads; of these: 13173002 (100.00%) were paired; of these: 480371 (3.65%) aligned concordantly 0 times 10125565 (76.87%) aligned concordantly exactly 1 time 2567066 (19.49%) aligned concordantly >1 times ---- 480371 pairs aligned concordantly 0 times; of these: 52998 (11.03%) aligned discordantly 1 time ---- 427373 pairs aligned 0 times concordantly or discordantly; of these: 854746 mates make up the pairs; of these: 697150 (81.56%) aligned 0 times 83612 (9.78%) aligned exactly 1 time 73984 (8.66%) aligned >1 times 97.35% overall alignment rate Time searching: 00:17:50 Overall time: 00:17:50 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 20 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] 4943075 / 12741657 = 0.3879 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 19:46:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.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 19:46:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:46:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:47:05: 1000000 INFO @ Sat, 15 Jan 2022 19:47:14: 2000000 INFO @ Sat, 15 Jan 2022 19:47:22: 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 19:47:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.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 19:47:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:47:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:47:30: 4000000 INFO @ Sat, 15 Jan 2022 19:47:35: 1000000 INFO @ Sat, 15 Jan 2022 19:47:40: 5000000 INFO @ Sat, 15 Jan 2022 19:47:44: 2000000 INFO @ Sat, 15 Jan 2022 19:47:51: 6000000 INFO @ Sat, 15 Jan 2022 19:47:54: 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 19:47:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.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 19:47:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:47:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:48:02: 7000000 INFO @ Sat, 15 Jan 2022 19:48:03: 4000000 INFO @ Sat, 15 Jan 2022 19:48:06: 1000000 INFO @ Sat, 15 Jan 2022 19:48:12: 8000000 INFO @ Sat, 15 Jan 2022 19:48:13: 5000000 INFO @ Sat, 15 Jan 2022 19:48:16: 2000000 INFO @ Sat, 15 Jan 2022 19:48:23: 6000000 INFO @ Sat, 15 Jan 2022 19:48:23: 9000000 INFO @ Sat, 15 Jan 2022 19:48:25: 3000000 INFO @ Sat, 15 Jan 2022 19:48:33: 7000000 INFO @ Sat, 15 Jan 2022 19:48:34: 10000000 INFO @ Sat, 15 Jan 2022 19:48:35: 4000000 INFO @ Sat, 15 Jan 2022 19:48:42: 8000000 INFO @ Sat, 15 Jan 2022 19:48:45: 5000000 INFO @ Sat, 15 Jan 2022 19:48:45: 11000000 INFO @ Sat, 15 Jan 2022 19:48:52: 9000000 INFO @ Sat, 15 Jan 2022 19:48:54: 6000000 INFO @ Sat, 15 Jan 2022 19:48:56: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:49:02: 10000000 INFO @ Sat, 15 Jan 2022 19:49:04: 7000000 INFO @ Sat, 15 Jan 2022 19:49:07: 13000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:49:12: 11000000 INFO @ Sat, 15 Jan 2022 19:49:13: 8000000 INFO @ Sat, 15 Jan 2022 19:49:17: 14000000 INFO @ Sat, 15 Jan 2022 19:49:22: 12000000 INFO @ Sat, 15 Jan 2022 19:49:23: 9000000 INFO @ Sat, 15 Jan 2022 19:49:28: 15000000 INFO @ Sat, 15 Jan 2022 19:49:32: 13000000 INFO @ Sat, 15 Jan 2022 19:49:33: 10000000 INFO @ Sat, 15 Jan 2022 19:49:36: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 19:49:36: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 19:49:36: #1 total tags in treatment: 7766787 INFO @ Sat, 15 Jan 2022 19:49:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:49:36: #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 19:49:36: #1 tags after filtering in treatment: 4239120 INFO @ Sat, 15 Jan 2022 19:49:36: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:49:36: #1 finished! INFO @ Sat, 15 Jan 2022 19:49:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:49:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:49:37: #2 number of paired peaks: 57 WARNING @ Sat, 15 Jan 2022 19:49:37: Too few paired peaks (57) 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 19:49:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.05_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/SRX9144936/SRX9144936.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:49:42: 14000000 INFO @ Sat, 15 Jan 2022 19:49:43: 11000000 INFO @ Sat, 15 Jan 2022 19:49:52: 15000000 INFO @ Sat, 15 Jan 2022 19:49:52: 12000000 INFO @ Sat, 15 Jan 2022 19:50:00: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 19:50:00: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 19:50:00: #1 total tags in treatment: 7766787 INFO @ Sat, 15 Jan 2022 19:50:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:50:00: #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 19:50:00: #1 tags after filtering in treatment: 4239120 INFO @ Sat, 15 Jan 2022 19:50:00: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:50:00: #1 finished! INFO @ Sat, 15 Jan 2022 19:50:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:50:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:50:00: #2 number of paired peaks: 57 WARNING @ Sat, 15 Jan 2022 19:50:00: Too few paired peaks (57) 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 19:50:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.10_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/SRX9144936/SRX9144936.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:50:01: 13000000 INFO @ Sat, 15 Jan 2022 19:50:10: 14000000 INFO @ Sat, 15 Jan 2022 19:50:19: 15000000 INFO @ Sat, 15 Jan 2022 19:50:25: #1 tag size is determined as 151 bps INFO @ Sat, 15 Jan 2022 19:50:25: #1 tag size = 151 INFO @ Sat, 15 Jan 2022 19:50:25: #1 total tags in treatment: 7766787 INFO @ Sat, 15 Jan 2022 19:50:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:50:25: #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 19:50:25: #1 tags after filtering in treatment: 4239120 INFO @ Sat, 15 Jan 2022 19:50:25: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:50:25: #1 finished! INFO @ Sat, 15 Jan 2022 19:50:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:50:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:50:25: #2 number of paired peaks: 57 WARNING @ Sat, 15 Jan 2022 19:50:25: Too few paired peaks (57) 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 19:50:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.20_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/SRX9144936/SRX9144936.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9144936/SRX9144936.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling