Job ID = 10223907 SRX = SRX4623300 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13975633 spots for SRR7767705/SRR7767705.sra Written 13975633 spots for SRR7767705/SRR7767705.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: 00:00:01 Multiseed full-index search: 00:05:00 13975633 reads; of these: 13975633 (100.00%) were paired; of these: 1946425 (13.93%) aligned concordantly 0 times 9931912 (71.07%) aligned concordantly exactly 1 time 2097296 (15.01%) aligned concordantly >1 times ---- 1946425 pairs aligned concordantly 0 times; of these: 421841 (21.67%) aligned discordantly 1 time ---- 1524584 pairs aligned 0 times concordantly or discordantly; of these: 3049168 mates make up the pairs; of these: 2674321 (87.71%) aligned 0 times 172515 (5.66%) aligned exactly 1 time 202332 (6.64%) aligned >1 times 90.43% overall alignment rate Time searching: 00:05:01 Overall time: 00:05:01 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 8 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] 305855 / 12423851 = 0.0246 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:53:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.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 @ Fri, 16 Oct 2020 08:53:27: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:53:27: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:53:32: 1000000 INFO @ Fri, 16 Oct 2020 08:53:37: 2000000 INFO @ Fri, 16 Oct 2020 08:53:41: 3000000 INFO @ Fri, 16 Oct 2020 08:53:46: 4000000 INFO @ Fri, 16 Oct 2020 08:53:50: 5000000 INFO @ Fri, 16 Oct 2020 08:53:55: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:53:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.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 @ Fri, 16 Oct 2020 08:53:57: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:53:57: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:54:00: 7000000 INFO @ Fri, 16 Oct 2020 08:54:02: 1000000 INFO @ Fri, 16 Oct 2020 08:54:05: 8000000 INFO @ Fri, 16 Oct 2020 08:54:07: 2000000 INFO @ Fri, 16 Oct 2020 08:54:10: 9000000 INFO @ Fri, 16 Oct 2020 08:54:12: 3000000 INFO @ Fri, 16 Oct 2020 08:54:15: 10000000 INFO @ Fri, 16 Oct 2020 08:54:17: 4000000 INFO @ Fri, 16 Oct 2020 08:54:20: 11000000 INFO @ Fri, 16 Oct 2020 08:54:22: 5000000 INFO @ Fri, 16 Oct 2020 08:54:25: 12000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 08:54:27: 6000000 INFO @ Fri, 16 Oct 2020 08:54:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.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 @ Fri, 16 Oct 2020 08:54:27: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:54:27: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:54:30: 13000000 INFO @ Fri, 16 Oct 2020 08:54:32: 7000000 INFO @ Fri, 16 Oct 2020 08:54:32: 1000000 INFO @ Fri, 16 Oct 2020 08:54:35: 14000000 INFO @ Fri, 16 Oct 2020 08:54:37: 8000000 INFO @ Fri, 16 Oct 2020 08:54:37: 2000000 INFO @ Fri, 16 Oct 2020 08:54:40: 15000000 INFO @ Fri, 16 Oct 2020 08:54:42: 9000000 INFO @ Fri, 16 Oct 2020 08:54:42: 3000000 INFO @ Fri, 16 Oct 2020 08:54:45: 16000000 INFO @ Fri, 16 Oct 2020 08:54:47: 10000000 INFO @ Fri, 16 Oct 2020 08:54:47: 4000000 INFO @ Fri, 16 Oct 2020 08:54:50: 17000000 INFO @ Fri, 16 Oct 2020 08:54:51: 11000000 INFO @ Fri, 16 Oct 2020 08:54:52: 5000000 INFO @ Fri, 16 Oct 2020 08:54:55: 18000000 INFO @ Fri, 16 Oct 2020 08:54:56: 6000000 INFO @ Fri, 16 Oct 2020 08:54:56: 12000000 INFO @ Fri, 16 Oct 2020 08:55:00: 19000000 INFO @ Fri, 16 Oct 2020 08:55:01: 7000000 INFO @ Fri, 16 Oct 2020 08:55:01: 13000000 INFO @ Fri, 16 Oct 2020 08:55:05: 20000000 INFO @ Fri, 16 Oct 2020 08:55:06: 14000000 INFO @ Fri, 16 Oct 2020 08:55:06: 8000000 INFO @ Fri, 16 Oct 2020 08:55:09: 21000000 INFO @ Fri, 16 Oct 2020 08:55:11: 15000000 INFO @ Fri, 16 Oct 2020 08:55:11: 9000000 INFO @ Fri, 16 Oct 2020 08:55:15: 22000000 INFO @ Fri, 16 Oct 2020 08:55:16: 16000000 INFO @ Fri, 16 Oct 2020 08:55:16: 10000000 INFO @ Fri, 16 Oct 2020 08:55:20: 23000000 INFO @ Fri, 16 Oct 2020 08:55:21: 17000000 INFO @ Fri, 16 Oct 2020 08:55:21: 11000000 INFO @ Fri, 16 Oct 2020 08:55:25: 24000000 INFO @ Fri, 16 Oct 2020 08:55:26: 18000000 INFO @ Fri, 16 Oct 2020 08:55:26: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 08:55:28: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:55:28: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:55:28: #1 total tags in treatment: 11725169 INFO @ Fri, 16 Oct 2020 08:55:28: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:55:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:55:28: #1 tags after filtering in treatment: 8332373 INFO @ Fri, 16 Oct 2020 08:55:28: #1 Redundant rate of treatment: 0.29 INFO @ Fri, 16 Oct 2020 08:55:28: #1 finished! INFO @ Fri, 16 Oct 2020 08:55:28: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:55:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:55:29: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:55:29: 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 @ Fri, 16 Oct 2020 08:55:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.05_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/SRX4623300/SRX4623300.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:55:31: 19000000 INFO @ Fri, 16 Oct 2020 08:55:31: 13000000 INFO @ Fri, 16 Oct 2020 08:55:36: 20000000 INFO @ Fri, 16 Oct 2020 08:55:36: 14000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 08:55:40: 21000000 INFO @ Fri, 16 Oct 2020 08:55:41: 15000000 INFO @ Fri, 16 Oct 2020 08:55:45: 22000000 INFO @ Fri, 16 Oct 2020 08:55:46: 16000000 INFO @ Fri, 16 Oct 2020 08:55:50: 23000000 INFO @ Fri, 16 Oct 2020 08:55:51: 17000000 INFO @ Fri, 16 Oct 2020 08:55:55: 24000000 INFO @ Fri, 16 Oct 2020 08:55:56: 18000000 INFO @ Fri, 16 Oct 2020 08:55:59: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:55:59: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:55:59: #1 total tags in treatment: 11725169 INFO @ Fri, 16 Oct 2020 08:55:59: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:55:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:55:59: #1 tags after filtering in treatment: 8332373 INFO @ Fri, 16 Oct 2020 08:55:59: #1 Redundant rate of treatment: 0.29 INFO @ Fri, 16 Oct 2020 08:55:59: #1 finished! INFO @ Fri, 16 Oct 2020 08:55:59: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:55:59: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:55:59: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:55:59: 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 @ Fri, 16 Oct 2020 08:55:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.10_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/SRX4623300/SRX4623300.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:56:01: 19000000 INFO @ Fri, 16 Oct 2020 08:56:06: 20000000 INFO @ Fri, 16 Oct 2020 08:56:11: 21000000 INFO @ Fri, 16 Oct 2020 08:56:15: 22000000 INFO @ Fri, 16 Oct 2020 08:56:20: 23000000 INFO @ Fri, 16 Oct 2020 08:56:25: 24000000 INFO @ Fri, 16 Oct 2020 08:56:28: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:56:28: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:56:28: #1 total tags in treatment: 11725169 INFO @ Fri, 16 Oct 2020 08:56:28: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:56:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:56:28: #1 tags after filtering in treatment: 8332373 INFO @ Fri, 16 Oct 2020 08:56:28: #1 Redundant rate of treatment: 0.29 INFO @ Fri, 16 Oct 2020 08:56:28: #1 finished! INFO @ Fri, 16 Oct 2020 08:56:28: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:56:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:56:29: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:56:29: 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 @ Fri, 16 Oct 2020 08:56:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.20_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/SRX4623300/SRX4623300.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623300/SRX4623300.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling