Job ID = 14521321 SRX = SRX11118940 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9213244 spots for SRR14785638/SRR14785638.sra Written 9213244 spots for SRR14785638/SRR14785638.sra Read 10425909 spots for SRR14785639/SRR14785639.sra Written 10425909 spots for SRR14785639/SRR14785639.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: 00:17:12 19639153 reads; of these: 19639153 (100.00%) were paired; of these: 4570096 (23.27%) aligned concordantly 0 times 13661876 (69.56%) aligned concordantly exactly 1 time 1407181 (7.17%) aligned concordantly >1 times ---- 4570096 pairs aligned concordantly 0 times; of these: 1783534 (39.03%) aligned discordantly 1 time ---- 2786562 pairs aligned 0 times concordantly or discordantly; of these: 5573124 mates make up the pairs; of these: 4657058 (83.56%) aligned 0 times 409956 (7.36%) aligned exactly 1 time 506110 (9.08%) aligned >1 times 88.14% overall alignment rate Time searching: 00:17:12 Overall time: 00:17:12 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] 2453820 / 16718182 = 0.1468 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 21:20:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.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 21:20:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:20:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:02: 1000000 INFO @ Sat, 15 Jan 2022 21:21:10: 2000000 INFO @ Sat, 15 Jan 2022 21:21:18: 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 21:21:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.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 21:21:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:26: 4000000 INFO @ Sat, 15 Jan 2022 21:21:32: 1000000 INFO @ Sat, 15 Jan 2022 21:21:35: 5000000 INFO @ Sat, 15 Jan 2022 21:21:41: 2000000 INFO @ Sat, 15 Jan 2022 21:21:43: 6000000 INFO @ Sat, 15 Jan 2022 21:21:50: 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 21:21:52: 7000000 INFO @ Sat, 15 Jan 2022 21:21:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.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 21:21:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:59: 4000000 INFO @ Sat, 15 Jan 2022 21:22:01: 8000000 INFO @ Sat, 15 Jan 2022 21:22:03: 1000000 INFO @ Sat, 15 Jan 2022 21:22:08: 5000000 INFO @ Sat, 15 Jan 2022 21:22:10: 9000000 INFO @ Sat, 15 Jan 2022 21:22:13: 2000000 INFO @ Sat, 15 Jan 2022 21:22:18: 6000000 INFO @ Sat, 15 Jan 2022 21:22:20: 10000000 INFO @ Sat, 15 Jan 2022 21:22:22: 3000000 INFO @ Sat, 15 Jan 2022 21:22:27: 7000000 INFO @ Sat, 15 Jan 2022 21:22:29: 11000000 INFO @ Sat, 15 Jan 2022 21:22:31: 4000000 INFO @ Sat, 15 Jan 2022 21:22:36: 8000000 INFO @ Sat, 15 Jan 2022 21:22:39: 12000000 INFO @ Sat, 15 Jan 2022 21:22:41: 5000000 INFO @ Sat, 15 Jan 2022 21:22:46: 9000000 INFO @ Sat, 15 Jan 2022 21:22:49: 13000000 INFO @ Sat, 15 Jan 2022 21:22:50: 6000000 INFO @ Sat, 15 Jan 2022 21:22:55: 10000000 INFO @ Sat, 15 Jan 2022 21:22:58: 14000000 INFO @ Sat, 15 Jan 2022 21:22:59: 7000000 INFO @ Sat, 15 Jan 2022 21:23:05: 11000000 INFO @ Sat, 15 Jan 2022 21:23:08: 15000000 INFO @ Sat, 15 Jan 2022 21:23:09: 8000000 INFO @ Sat, 15 Jan 2022 21:23:14: 12000000 INFO @ Sat, 15 Jan 2022 21:23:17: 16000000 INFO @ Sat, 15 Jan 2022 21:23:18: 9000000 INFO @ Sat, 15 Jan 2022 21:23:24: 13000000 INFO @ Sat, 15 Jan 2022 21:23:27: 17000000 INFO @ Sat, 15 Jan 2022 21:23:27: 10000000 INFO @ Sat, 15 Jan 2022 21:23:34: 14000000 INFO @ Sat, 15 Jan 2022 21:23:36: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:23:37: 11000000 INFO @ Sat, 15 Jan 2022 21:23:43: 15000000 INFO @ Sat, 15 Jan 2022 21:23:46: 19000000 INFO @ Sat, 15 Jan 2022 21:23:46: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:23:53: 16000000 INFO @ Sat, 15 Jan 2022 21:23:55: 20000000 INFO @ Sat, 15 Jan 2022 21:23:56: 13000000 INFO @ Sat, 15 Jan 2022 21:24:02: 17000000 INFO @ Sat, 15 Jan 2022 21:24:05: 21000000 INFO @ Sat, 15 Jan 2022 21:24:06: 14000000 INFO @ Sat, 15 Jan 2022 21:24:12: 18000000 INFO @ Sat, 15 Jan 2022 21:24:14: 22000000 INFO @ Sat, 15 Jan 2022 21:24:15: 15000000 INFO @ Sat, 15 Jan 2022 21:24:21: 19000000 INFO @ Sat, 15 Jan 2022 21:24:24: 23000000 INFO @ Sat, 15 Jan 2022 21:24:25: 16000000 INFO @ Sat, 15 Jan 2022 21:24:30: 20000000 INFO @ Sat, 15 Jan 2022 21:24:33: 24000000 INFO @ Sat, 15 Jan 2022 21:24:34: 17000000 INFO @ Sat, 15 Jan 2022 21:24:39: 21000000 INFO @ Sat, 15 Jan 2022 21:24:42: 25000000 INFO @ Sat, 15 Jan 2022 21:24:43: 18000000 INFO @ Sat, 15 Jan 2022 21:24:49: 22000000 INFO @ Sat, 15 Jan 2022 21:24:52: 26000000 INFO @ Sat, 15 Jan 2022 21:24:52: 19000000 INFO @ Sat, 15 Jan 2022 21:24:58: 23000000 INFO @ Sat, 15 Jan 2022 21:25:01: 27000000 INFO @ Sat, 15 Jan 2022 21:25:02: 20000000 INFO @ Sat, 15 Jan 2022 21:25:07: 24000000 INFO @ Sat, 15 Jan 2022 21:25:10: 28000000 INFO @ Sat, 15 Jan 2022 21:25:11: 21000000 INFO @ Sat, 15 Jan 2022 21:25:16: 25000000 INFO @ Sat, 15 Jan 2022 21:25:19: 29000000 INFO @ Sat, 15 Jan 2022 21:25:20: 22000000 INFO @ Sat, 15 Jan 2022 21:25:25: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 21:25:25: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 21:25:25: #1 total tags in treatment: 12841940 INFO @ Sat, 15 Jan 2022 21:25:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:25:25: #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 21:25:26: #1 tags after filtering in treatment: 8878212 INFO @ Sat, 15 Jan 2022 21:25:26: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:25:26: #1 finished! INFO @ Sat, 15 Jan 2022 21:25:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:25:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:25:26: 26000000 INFO @ Sat, 15 Jan 2022 21:25:26: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:25:26: 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 21:25:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.05_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/SRX11118940/SRX11118940.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:25:30: 23000000 INFO @ Sat, 15 Jan 2022 21:25:35: 27000000 INFO @ Sat, 15 Jan 2022 21:25:40: 24000000 INFO @ Sat, 15 Jan 2022 21:25:44: 28000000 INFO @ Sat, 15 Jan 2022 21:25:49: 25000000 INFO @ Sat, 15 Jan 2022 21:25:52: 29000000 INFO @ Sat, 15 Jan 2022 21:25:58: 26000000 INFO @ Sat, 15 Jan 2022 21:25:58: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 21:25:58: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 21:25:58: #1 total tags in treatment: 12841940 INFO @ Sat, 15 Jan 2022 21:25:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:25:58: #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 21:25:59: #1 tags after filtering in treatment: 8878212 INFO @ Sat, 15 Jan 2022 21:25:59: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:25:59: #1 finished! INFO @ Sat, 15 Jan 2022 21:25:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:25:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:25:59: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:25:59: 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 21:25:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.10_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/SRX11118940/SRX11118940.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:26:07: 27000000 INFO @ Sat, 15 Jan 2022 21:26:15: 28000000 INFO @ Sat, 15 Jan 2022 21:26:23: 29000000 INFO @ Sat, 15 Jan 2022 21:26:29: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 21:26:29: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 21:26:29: #1 total tags in treatment: 12841940 INFO @ Sat, 15 Jan 2022 21:26:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:26:29: #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 21:26:29: #1 tags after filtering in treatment: 8878212 INFO @ Sat, 15 Jan 2022 21:26:29: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:26:29: #1 finished! INFO @ Sat, 15 Jan 2022 21:26:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:26:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:26:29: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:26:29: 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 21:26:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.20_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/SRX11118940/SRX11118940.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11118940/SRX11118940.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling