Job ID = 14521027 SRX = SRX8245341 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16920665 spots for SRR11684552/SRR11684552.sra Written 16920665 spots for SRR11684552/SRR11684552.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: 00:13:44 16920665 reads; of these: 16920665 (100.00%) were paired; of these: 8446688 (49.92%) aligned concordantly 0 times 7432394 (43.92%) aligned concordantly exactly 1 time 1041583 (6.16%) aligned concordantly >1 times ---- 8446688 pairs aligned concordantly 0 times; of these: 409259 (4.85%) aligned discordantly 1 time ---- 8037429 pairs aligned 0 times concordantly or discordantly; of these: 16074858 mates make up the pairs; of these: 8807577 (54.79%) aligned 0 times 6211115 (38.64%) aligned exactly 1 time 1056166 (6.57%) aligned >1 times 73.97% overall alignment rate Time searching: 00:13:44 Overall time: 00:13:44 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 12 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] 163907 / 8882086 = 0.0185 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 20:44:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.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 20:44:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:53: 1000000 INFO @ Sat, 15 Jan 2022 20:44:59: 2000000 INFO @ Sat, 15 Jan 2022 20:45:05: 3000000 INFO @ Sat, 15 Jan 2022 20:45:11: 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 20:45:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.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 20:45:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:45:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:45:17: 5000000 INFO @ Sat, 15 Jan 2022 20:45:23: 1000000 INFO @ Sat, 15 Jan 2022 20:45:24: 6000000 INFO @ Sat, 15 Jan 2022 20:45:29: 2000000 INFO @ Sat, 15 Jan 2022 20:45:30: 7000000 INFO @ Sat, 15 Jan 2022 20:45:35: 3000000 INFO @ Sat, 15 Jan 2022 20:45:37: 8000000 INFO @ Sat, 15 Jan 2022 20:45:41: 4000000 INFO @ Sat, 15 Jan 2022 20:45:43: 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 20:45:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.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 20:45:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:45:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:45:47: 5000000 INFO @ Sat, 15 Jan 2022 20:45:50: 10000000 INFO @ Sat, 15 Jan 2022 20:45:53: 1000000 INFO @ Sat, 15 Jan 2022 20:45:54: 6000000 INFO @ Sat, 15 Jan 2022 20:45:56: 11000000 INFO @ Sat, 15 Jan 2022 20:46:00: 2000000 INFO @ Sat, 15 Jan 2022 20:46:01: 7000000 INFO @ Sat, 15 Jan 2022 20:46:03: 12000000 INFO @ Sat, 15 Jan 2022 20:46:07: 3000000 INFO @ Sat, 15 Jan 2022 20:46:08: 8000000 INFO @ Sat, 15 Jan 2022 20:46:10: 13000000 INFO @ Sat, 15 Jan 2022 20:46:14: 4000000 INFO @ Sat, 15 Jan 2022 20:46:15: 9000000 INFO @ Sat, 15 Jan 2022 20:46:16: 14000000 INFO @ Sat, 15 Jan 2022 20:46:21: 5000000 INFO @ Sat, 15 Jan 2022 20:46:21: 10000000 INFO @ Sat, 15 Jan 2022 20:46:23: 15000000 INFO @ Sat, 15 Jan 2022 20:46:28: 6000000 INFO @ Sat, 15 Jan 2022 20:46:28: 11000000 INFO @ Sat, 15 Jan 2022 20:46:30: 16000000 INFO @ Sat, 15 Jan 2022 20:46:35: 7000000 INFO @ Sat, 15 Jan 2022 20:46:35: 12000000 INFO @ Sat, 15 Jan 2022 20:46:36: 17000000 INFO @ Sat, 15 Jan 2022 20:46:42: 8000000 INFO @ Sat, 15 Jan 2022 20:46:42: 13000000 INFO @ Sat, 15 Jan 2022 20:46:43: 18000000 INFO @ Sat, 15 Jan 2022 20:46:48: 9000000 INFO @ Sat, 15 Jan 2022 20:46:49: 14000000 INFO @ Sat, 15 Jan 2022 20:46:50: 19000000 INFO @ Sat, 15 Jan 2022 20:46:55: 10000000 INFO @ Sat, 15 Jan 2022 20:46:55: 15000000 INFO @ Sat, 15 Jan 2022 20:46:57: 20000000 INFO @ Sat, 15 Jan 2022 20:47:01: 16000000 INFO @ Sat, 15 Jan 2022 20:47:02: 11000000 INFO @ Sat, 15 Jan 2022 20:47:04: 21000000 INFO @ Sat, 15 Jan 2022 20:47:08: 17000000 INFO @ Sat, 15 Jan 2022 20:47:09: 12000000 INFO @ Sat, 15 Jan 2022 20:47:10: 22000000 INFO @ Sat, 15 Jan 2022 20:47:14: 18000000 INFO @ Sat, 15 Jan 2022 20:47:16: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:47:17: 23000000 INFO @ Sat, 15 Jan 2022 20:47:21: 19000000 INFO @ Sat, 15 Jan 2022 20:47:23: 14000000 INFO @ Sat, 15 Jan 2022 20:47:24: 24000000 INFO @ Sat, 15 Jan 2022 20:47:28: 20000000 INFO @ Sat, 15 Jan 2022 20:47:29: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:47:29: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:47:29: #1 total tags in treatment: 8312547 INFO @ Sat, 15 Jan 2022 20:47:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:47:29: #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 20:47:29: #1 tags after filtering in treatment: 6318961 INFO @ Sat, 15 Jan 2022 20:47:29: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 20:47:29: #1 finished! INFO @ Sat, 15 Jan 2022 20:47:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:47:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:47:29: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:47:29: Too few paired peaks (0) 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 20:47:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.05_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/SRX8245341/SRX8245341.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:47:31: 15000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:47:35: 21000000 INFO @ Sat, 15 Jan 2022 20:47:38: 16000000 INFO @ Sat, 15 Jan 2022 20:47:43: 22000000 INFO @ Sat, 15 Jan 2022 20:47:45: 17000000 INFO @ Sat, 15 Jan 2022 20:47:50: 23000000 INFO @ Sat, 15 Jan 2022 20:47:52: 18000000 INFO @ Sat, 15 Jan 2022 20:47:58: 24000000 INFO @ Sat, 15 Jan 2022 20:48:00: 19000000 INFO @ Sat, 15 Jan 2022 20:48:03: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:48:03: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:48:03: #1 total tags in treatment: 8312547 INFO @ Sat, 15 Jan 2022 20:48:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:48:03: #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 20:48:04: #1 tags after filtering in treatment: 6318961 INFO @ Sat, 15 Jan 2022 20:48:04: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 20:48:04: #1 finished! INFO @ Sat, 15 Jan 2022 20:48:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:48:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:48:04: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:48:04: Too few paired peaks (0) 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 20:48:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.10_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/SRX8245341/SRX8245341.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:48:08: 20000000 INFO @ Sat, 15 Jan 2022 20:48:15: 21000000 INFO @ Sat, 15 Jan 2022 20:48:23: 22000000 INFO @ Sat, 15 Jan 2022 20:48:31: 23000000 INFO @ Sat, 15 Jan 2022 20:48:40: 24000000 INFO @ Sat, 15 Jan 2022 20:48:47: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:48:47: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:48:47: #1 total tags in treatment: 8312547 INFO @ Sat, 15 Jan 2022 20:48:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:48:47: #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 20:48:47: #1 tags after filtering in treatment: 6318961 INFO @ Sat, 15 Jan 2022 20:48:47: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 20:48:47: #1 finished! INFO @ Sat, 15 Jan 2022 20:48:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:48:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:48:47: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:48:47: Too few paired peaks (0) 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 20:48:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.20_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/SRX8245341/SRX8245341.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245341/SRX8245341.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling