Job ID = 14520366 SRX = SRX11781111 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:00:21 prefetch.2.10.7: 1) Downloading 'SRR15481054'... 2022-01-15T10:00:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:02:15 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:02:15 prefetch.2.10.7: 1) 'SRR15481054' was downloaded successfully 2022-01-15T10:02:15 prefetch.2.10.7: 'SRR15481054' has 0 unresolved dependencies Read 20413232 spots for SRR15481054/SRR15481054.sra Written 20413232 spots for SRR15481054/SRR15481054.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: 00:22:56 20413232 reads; of these: 20413232 (100.00%) were paired; of these: 5327171 (26.10%) aligned concordantly 0 times 13132132 (64.33%) aligned concordantly exactly 1 time 1953929 (9.57%) aligned concordantly >1 times ---- 5327171 pairs aligned concordantly 0 times; of these: 418686 (7.86%) aligned discordantly 1 time ---- 4908485 pairs aligned 0 times concordantly or discordantly; of these: 9816970 mates make up the pairs; of these: 5512727 (56.16%) aligned 0 times 3611218 (36.79%) aligned exactly 1 time 693025 (7.06%) aligned >1 times 86.50% overall alignment rate Time searching: 00:22:56 Overall time: 00:22:56 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 16 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] 2945959 / 15503392 = 0.1900 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 19:43:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.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 19:43:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:43:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:43:49: 1000000 INFO @ Sat, 15 Jan 2022 19:43:56: 2000000 INFO @ Sat, 15 Jan 2022 19:44:04: 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 19:44:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.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 19:44:11: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:44:11: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:44:13: 4000000 INFO @ Sat, 15 Jan 2022 19:44:21: 1000000 INFO @ Sat, 15 Jan 2022 19:44:23: 5000000 INFO @ Sat, 15 Jan 2022 19:44:30: 2000000 INFO @ Sat, 15 Jan 2022 19:44:32: 6000000 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 19:44:40: 3000000 INFO @ Sat, 15 Jan 2022 19:44:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.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 19:44:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:44:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:44:42: 7000000 INFO @ Sat, 15 Jan 2022 19:44:50: 4000000 INFO @ Sat, 15 Jan 2022 19:44:51: 1000000 INFO @ Sat, 15 Jan 2022 19:44:51: 8000000 INFO @ Sat, 15 Jan 2022 19:45:00: 5000000 INFO @ Sat, 15 Jan 2022 19:45:00: 2000000 INFO @ Sat, 15 Jan 2022 19:45:01: 9000000 INFO @ Sat, 15 Jan 2022 19:45:09: 6000000 INFO @ Sat, 15 Jan 2022 19:45:10: 3000000 INFO @ Sat, 15 Jan 2022 19:45:11: 10000000 INFO @ Sat, 15 Jan 2022 19:45:19: 7000000 INFO @ Sat, 15 Jan 2022 19:45:20: 4000000 INFO @ Sat, 15 Jan 2022 19:45:21: 11000000 INFO @ Sat, 15 Jan 2022 19:45:28: 8000000 INFO @ Sat, 15 Jan 2022 19:45:29: 5000000 INFO @ Sat, 15 Jan 2022 19:45:29: 12000000 INFO @ Sat, 15 Jan 2022 19:45:36: 9000000 INFO @ Sat, 15 Jan 2022 19:45:37: 6000000 INFO @ Sat, 15 Jan 2022 19:45:38: 13000000 INFO @ Sat, 15 Jan 2022 19:45:44: 10000000 INFO @ Sat, 15 Jan 2022 19:45:45: 7000000 INFO @ Sat, 15 Jan 2022 19:45:46: 14000000 INFO @ Sat, 15 Jan 2022 19:45:52: 11000000 INFO @ Sat, 15 Jan 2022 19:45:54: 8000000 INFO @ Sat, 15 Jan 2022 19:45:55: 15000000 INFO @ Sat, 15 Jan 2022 19:46:01: 12000000 INFO @ Sat, 15 Jan 2022 19:46:02: 9000000 INFO @ Sat, 15 Jan 2022 19:46:04: 16000000 INFO @ Sat, 15 Jan 2022 19:46:09: 13000000 INFO @ Sat, 15 Jan 2022 19:46:10: 10000000 INFO @ Sat, 15 Jan 2022 19:46:12: 17000000 INFO @ Sat, 15 Jan 2022 19:46:18: 14000000 INFO @ Sat, 15 Jan 2022 19:46:19: 11000000 INFO @ Sat, 15 Jan 2022 19:46:21: 18000000 INFO @ Sat, 15 Jan 2022 19:46:26: 15000000 INFO @ Sat, 15 Jan 2022 19:46:27: 12000000 INFO @ Sat, 15 Jan 2022 19:46:29: 19000000 INFO @ Sat, 15 Jan 2022 19:46:34: 16000000 INFO @ Sat, 15 Jan 2022 19:46:35: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:46:38: 20000000 INFO @ Sat, 15 Jan 2022 19:46:43: 17000000 INFO @ Sat, 15 Jan 2022 19:46:44: 14000000 INFO @ Sat, 15 Jan 2022 19:46:46: 21000000 INFO @ Sat, 15 Jan 2022 19:46:51: 18000000 INFO @ Sat, 15 Jan 2022 19:46:52: 15000000 INFO @ Sat, 15 Jan 2022 19:46:54: 22000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:47:00: 19000000 INFO @ Sat, 15 Jan 2022 19:47:01: 16000000 INFO @ Sat, 15 Jan 2022 19:47:03: 23000000 INFO @ Sat, 15 Jan 2022 19:47:08: 20000000 INFO @ Sat, 15 Jan 2022 19:47:09: 17000000 INFO @ Sat, 15 Jan 2022 19:47:12: 24000000 INFO @ Sat, 15 Jan 2022 19:47:16: 21000000 INFO @ Sat, 15 Jan 2022 19:47:18: 18000000 INFO @ Sat, 15 Jan 2022 19:47:20: 25000000 INFO @ Sat, 15 Jan 2022 19:47:25: 22000000 INFO @ Sat, 15 Jan 2022 19:47:27: 19000000 INFO @ Sat, 15 Jan 2022 19:47:29: 26000000 INFO @ Sat, 15 Jan 2022 19:47:33: 23000000 INFO @ Sat, 15 Jan 2022 19:47:35: 20000000 INFO @ Sat, 15 Jan 2022 19:47:38: 27000000 INFO @ Sat, 15 Jan 2022 19:47:41: 24000000 INFO @ Sat, 15 Jan 2022 19:47:43: 21000000 INFO @ Sat, 15 Jan 2022 19:47:46: 28000000 INFO @ Sat, 15 Jan 2022 19:47:50: 25000000 INFO @ Sat, 15 Jan 2022 19:47:51: 22000000 INFO @ Sat, 15 Jan 2022 19:47:55: 29000000 INFO @ Sat, 15 Jan 2022 19:47:59: 26000000 INFO @ Sat, 15 Jan 2022 19:47:59: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:47:59: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:47:59: #1 total tags in treatment: 12187625 INFO @ Sat, 15 Jan 2022 19:47:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:47:59: #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 19:47:59: #1 tags after filtering in treatment: 6852348 INFO @ Sat, 15 Jan 2022 19:47:59: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 15 Jan 2022 19:47:59: #1 finished! INFO @ Sat, 15 Jan 2022 19:47:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:47:59: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:47:59: 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 19:47:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 19:48:00: 23000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:48:07: 27000000 INFO @ Sat, 15 Jan 2022 19:48:08: 24000000 INFO @ Sat, 15 Jan 2022 19:48:15: 28000000 INFO @ Sat, 15 Jan 2022 19:48:16: 25000000 INFO @ Sat, 15 Jan 2022 19:48:23: 29000000 INFO @ Sat, 15 Jan 2022 19:48:25: 26000000 INFO @ Sat, 15 Jan 2022 19:48:27: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:48:27: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:48:27: #1 total tags in treatment: 12187625 INFO @ Sat, 15 Jan 2022 19:48:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:48:27: #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 19:48:27: #1 tags after filtering in treatment: 6852348 INFO @ Sat, 15 Jan 2022 19:48:27: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 15 Jan 2022 19:48:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:48:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:48:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:48:28: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:48:28: 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 19:48:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.10_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/SRX11781111/SRX11781111.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:48:33: 27000000 INFO @ Sat, 15 Jan 2022 19:48:41: 28000000 INFO @ Sat, 15 Jan 2022 19:48:49: 29000000 INFO @ Sat, 15 Jan 2022 19:48:53: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:48:53: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:48:53: #1 total tags in treatment: 12187625 INFO @ Sat, 15 Jan 2022 19:48:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:48:53: #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 19:48:53: #1 tags after filtering in treatment: 6852348 INFO @ Sat, 15 Jan 2022 19:48:53: #1 Redundant rate of treatment: 0.44 INFO @ Sat, 15 Jan 2022 19:48:53: #1 finished! INFO @ Sat, 15 Jan 2022 19:48:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:48:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:48:53: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:48:53: 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 19:48:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.20_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/SRX11781111/SRX11781111.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781111/SRX11781111.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling