Job ID = 12531691 SRX = SRX4555059 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13664423 spots for SRR7696760/SRR7696760.sra Written 13664423 spots for SRR7696760/SRR7696760.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: 00:15:32 13664423 reads; of these: 13664423 (100.00%) were paired; of these: 894471 (6.55%) aligned concordantly 0 times 6453402 (47.23%) aligned concordantly exactly 1 time 6316550 (46.23%) aligned concordantly >1 times ---- 894471 pairs aligned concordantly 0 times; of these: 58795 (6.57%) aligned discordantly 1 time ---- 835676 pairs aligned 0 times concordantly or discordantly; of these: 1671352 mates make up the pairs; of these: 1318368 (78.88%) aligned 0 times 178037 (10.65%) aligned exactly 1 time 174947 (10.47%) aligned >1 times 95.18% overall alignment rate Time searching: 00:15:32 Overall time: 00:15:32 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] 2403171 / 5780249 = 0.4158 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:36:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.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, 17 Apr 2021 09:36:17: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:36:17: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:36:23: 1000000 INFO @ Sat, 17 Apr 2021 09:36:29: 2000000 INFO @ Sat, 17 Apr 2021 09:36:35: 3000000 INFO @ Sat, 17 Apr 2021 09:36:41: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:36:46: 5000000 INFO @ Sat, 17 Apr 2021 09:36:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.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, 17 Apr 2021 09:36:47: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:36:47: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:36:53: 6000000 INFO @ Sat, 17 Apr 2021 09:36:53: 1000000 INFO @ Sat, 17 Apr 2021 09:36:59: 7000000 INFO @ Sat, 17 Apr 2021 09:37:00: 2000000 INFO @ Sat, 17 Apr 2021 09:37:05: 8000000 INFO @ Sat, 17 Apr 2021 09:37:06: 3000000 INFO @ Sat, 17 Apr 2021 09:37:12: 9000000 INFO @ Sat, 17 Apr 2021 09:37:12: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:37:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.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, 17 Apr 2021 09:37:17: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:37:17: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:37:17: 10000000 INFO @ Sat, 17 Apr 2021 09:37:18: 5000000 INFO @ Sat, 17 Apr 2021 09:37:23: 1000000 INFO @ Sat, 17 Apr 2021 09:37:23: 11000000 INFO @ Sat, 17 Apr 2021 09:37:25: 6000000 INFO @ Sat, 17 Apr 2021 09:37:29: 12000000 INFO @ Sat, 17 Apr 2021 09:37:29: 2000000 INFO @ Sat, 17 Apr 2021 09:37:31: 7000000 INFO @ Sat, 17 Apr 2021 09:37:35: 13000000 INFO @ Sat, 17 Apr 2021 09:37:36: 3000000 INFO @ Sat, 17 Apr 2021 09:37:38: 8000000 INFO @ Sat, 17 Apr 2021 09:37:41: 14000000 INFO @ Sat, 17 Apr 2021 09:37:42: 4000000 INFO @ Sat, 17 Apr 2021 09:37:44: 9000000 INFO @ Sat, 17 Apr 2021 09:37:47: 15000000 INFO @ Sat, 17 Apr 2021 09:37:49: 5000000 INFO @ Sat, 17 Apr 2021 09:37:50: 10000000 INFO @ Sat, 17 Apr 2021 09:37:53: 16000000 INFO @ Sat, 17 Apr 2021 09:37:55: 6000000 INFO @ Sat, 17 Apr 2021 09:37:55: 11000000 INFO @ Sat, 17 Apr 2021 09:37:59: 17000000 INFO @ Sat, 17 Apr 2021 09:38:01: 12000000 INFO @ Sat, 17 Apr 2021 09:38:01: 7000000 INFO @ Sat, 17 Apr 2021 09:38:05: 18000000 INFO @ Sat, 17 Apr 2021 09:38:08: 13000000 INFO @ Sat, 17 Apr 2021 09:38:08: 8000000 INFO @ Sat, 17 Apr 2021 09:38:12: 19000000 INFO @ Sat, 17 Apr 2021 09:38:14: 14000000 INFO @ Sat, 17 Apr 2021 09:38:14: 9000000 INFO @ Sat, 17 Apr 2021 09:38:18: 20000000 INFO @ Sat, 17 Apr 2021 09:38:20: 15000000 INFO @ Sat, 17 Apr 2021 09:38:20: 10000000 INFO @ Sat, 17 Apr 2021 09:38:25: 21000000 INFO @ Sat, 17 Apr 2021 09:38:26: 16000000 INFO @ Sat, 17 Apr 2021 09:38:26: #1 tag size is determined as 77 bps INFO @ Sat, 17 Apr 2021 09:38:26: #1 tag size = 77 INFO @ Sat, 17 Apr 2021 09:38:26: #1 total tags in treatment: 10370066 INFO @ Sat, 17 Apr 2021 09:38:26: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:38:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:38:27: 11000000 INFO @ Sat, 17 Apr 2021 09:38:27: #1 tags after filtering in treatment: 2833808 INFO @ Sat, 17 Apr 2021 09:38:27: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:38:27: #1 finished! INFO @ Sat, 17 Apr 2021 09:38:27: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:38:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:38:27: #2 number of paired peaks: 42 WARNING @ Sat, 17 Apr 2021 09:38:27: Too few paired peaks (42) 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, 17 Apr 2021 09:38:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.05_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/SRX4555059/SRX4555059.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:38:32: 17000000 INFO @ Sat, 17 Apr 2021 09:38:33: 12000000 INFO @ Sat, 17 Apr 2021 09:38:39: 18000000 INFO @ Sat, 17 Apr 2021 09:38:39: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:38:45: 14000000 INFO @ Sat, 17 Apr 2021 09:38:45: 19000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:38:51: 15000000 INFO @ Sat, 17 Apr 2021 09:38:52: 20000000 INFO @ Sat, 17 Apr 2021 09:38:57: 16000000 INFO @ Sat, 17 Apr 2021 09:38:58: 21000000 INFO @ Sat, 17 Apr 2021 09:39:00: #1 tag size is determined as 77 bps INFO @ Sat, 17 Apr 2021 09:39:00: #1 tag size = 77 INFO @ Sat, 17 Apr 2021 09:39:00: #1 total tags in treatment: 10370066 INFO @ Sat, 17 Apr 2021 09:39:00: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:39:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:39:00: #1 tags after filtering in treatment: 2833808 INFO @ Sat, 17 Apr 2021 09:39:00: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:39:00: #1 finished! INFO @ Sat, 17 Apr 2021 09:39:00: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:39:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:39:00: #2 number of paired peaks: 42 WARNING @ Sat, 17 Apr 2021 09:39:00: Too few paired peaks (42) 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, 17 Apr 2021 09:39:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.10_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/SRX4555059/SRX4555059.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:39:03: 17000000 INFO @ Sat, 17 Apr 2021 09:39:10: 18000000 INFO @ Sat, 17 Apr 2021 09:39:16: 19000000 INFO @ Sat, 17 Apr 2021 09:39:22: 20000000 INFO @ Sat, 17 Apr 2021 09:39:29: 21000000 INFO @ Sat, 17 Apr 2021 09:39:30: #1 tag size is determined as 77 bps INFO @ Sat, 17 Apr 2021 09:39:30: #1 tag size = 77 INFO @ Sat, 17 Apr 2021 09:39:30: #1 total tags in treatment: 10370066 INFO @ Sat, 17 Apr 2021 09:39:30: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:39:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:39:30: #1 tags after filtering in treatment: 2833808 INFO @ Sat, 17 Apr 2021 09:39:30: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:39:30: #1 finished! INFO @ Sat, 17 Apr 2021 09:39:30: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:39:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:39:30: #2 number of paired peaks: 42 WARNING @ Sat, 17 Apr 2021 09:39:30: Too few paired peaks (42) 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, 17 Apr 2021 09:39:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.20_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/SRX4555059/SRX4555059.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555059/SRX4555059.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling