Job ID = 14521859 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: 00:00:00 Multiseed full-index search: 00:07:06 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: 00:07:06 Overall time: 00:07:06 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:58:25: # 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 @ Sat, 15 Jan 2022 21:58:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:58:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:58:31: 1000000 INFO @ Sat, 15 Jan 2022 21:58:36: 2000000 INFO @ Sat, 15 Jan 2022 21:58:42: 3000000 INFO @ Sat, 15 Jan 2022 21:58:47: 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 21:58:53: 5000000 INFO @ Sat, 15 Jan 2022 21:58:55: # 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 @ Sat, 15 Jan 2022 21:58:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:58:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:58:59: 6000000 INFO @ Sat, 15 Jan 2022 21:59:01: 1000000 INFO @ Sat, 15 Jan 2022 21:59:05: 7000000 INFO @ Sat, 15 Jan 2022 21:59:07: 2000000 INFO @ Sat, 15 Jan 2022 21:59:11: 8000000 INFO @ Sat, 15 Jan 2022 21:59:13: 3000000 INFO @ Sat, 15 Jan 2022 21:59:17: 9000000 INFO @ Sat, 15 Jan 2022 21:59:19: 4000000 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 21:59:23: 10000000 INFO @ Sat, 15 Jan 2022 21:59:25: 5000000 INFO @ Sat, 15 Jan 2022 21:59:25: # 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 @ Sat, 15 Jan 2022 21:59:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:59:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:59:29: 11000000 INFO @ Sat, 15 Jan 2022 21:59:30: 1000000 INFO @ Sat, 15 Jan 2022 21:59:31: 6000000 INFO @ Sat, 15 Jan 2022 21:59:34: 2000000 INFO @ Sat, 15 Jan 2022 21:59:35: 12000000 INFO @ Sat, 15 Jan 2022 21:59:37: 7000000 INFO @ Sat, 15 Jan 2022 21:59:39: 3000000 INFO @ Sat, 15 Jan 2022 21:59:41: 13000000 INFO @ Sat, 15 Jan 2022 21:59:42: 8000000 INFO @ Sat, 15 Jan 2022 21:59:44: 4000000 INFO @ Sat, 15 Jan 2022 21:59:46: 14000000 INFO @ Sat, 15 Jan 2022 21:59:48: 9000000 INFO @ Sat, 15 Jan 2022 21:59:49: 5000000 INFO @ Sat, 15 Jan 2022 21:59:52: 15000000 INFO @ Sat, 15 Jan 2022 21:59:53: 10000000 INFO @ Sat, 15 Jan 2022 21:59:55: 6000000 INFO @ Sat, 15 Jan 2022 21:59:57: 16000000 INFO @ Sat, 15 Jan 2022 21:59:59: 11000000 INFO @ Sat, 15 Jan 2022 22:00:01: 7000000 INFO @ Sat, 15 Jan 2022 22:00:03: 17000000 INFO @ Sat, 15 Jan 2022 22:00:05: 12000000 INFO @ Sat, 15 Jan 2022 22:00:07: 8000000 INFO @ Sat, 15 Jan 2022 22:00:09: 18000000 INFO @ Sat, 15 Jan 2022 22:00:10: 13000000 INFO @ Sat, 15 Jan 2022 22:00:12: 9000000 INFO @ Sat, 15 Jan 2022 22:00:14: 19000000 INFO @ Sat, 15 Jan 2022 22:00:16: 14000000 INFO @ Sat, 15 Jan 2022 22:00:18: 10000000 INFO @ Sat, 15 Jan 2022 22:00:20: 20000000 INFO @ Sat, 15 Jan 2022 22:00:21: 15000000 INFO @ Sat, 15 Jan 2022 22:00:23: 11000000 INFO @ Sat, 15 Jan 2022 22:00:26: 21000000 INFO @ Sat, 15 Jan 2022 22:00:27: 16000000 INFO @ Sat, 15 Jan 2022 22:00:29: 12000000 INFO @ Sat, 15 Jan 2022 22:00:31: 22000000 INFO @ Sat, 15 Jan 2022 22:00:32: 17000000 INFO @ Sat, 15 Jan 2022 22:00:34: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:00:37: 23000000 INFO @ Sat, 15 Jan 2022 22:00:38: 18000000 INFO @ Sat, 15 Jan 2022 22:00:40: 14000000 INFO @ Sat, 15 Jan 2022 22:00:42: 24000000 INFO @ Sat, 15 Jan 2022 22:00:43: 19000000 INFO @ Sat, 15 Jan 2022 22:00:46: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:00:46: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:00:46: #1 total tags in treatment: 11725169 INFO @ Sat, 15 Jan 2022 22:00:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:00:46: #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 22:00:46: #1 tags after filtering in treatment: 8332373 INFO @ Sat, 15 Jan 2022 22:00:46: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 22:00:46: #1 finished! INFO @ Sat, 15 Jan 2022 22:00:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:00:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:00:46: 15000000 INFO @ Sat, 15 Jan 2022 22:00:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:00:46: 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 22:00:46: 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 @ Sat, 15 Jan 2022 22:00:49: 20000000 INFO @ Sat, 15 Jan 2022 22:00:51: 16000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:00:54: 21000000 INFO @ Sat, 15 Jan 2022 22:00:57: 17000000 INFO @ Sat, 15 Jan 2022 22:00:59: 22000000 INFO @ Sat, 15 Jan 2022 22:01:02: 18000000 INFO @ Sat, 15 Jan 2022 22:01:04: 23000000 INFO @ Sat, 15 Jan 2022 22:01:08: 19000000 INFO @ Sat, 15 Jan 2022 22:01:09: 24000000 INFO @ Sat, 15 Jan 2022 22:01:13: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:01:13: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:01:13: #1 total tags in treatment: 11725169 INFO @ Sat, 15 Jan 2022 22:01:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:01:13: #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 22:01:13: #1 tags after filtering in treatment: 8332373 INFO @ Sat, 15 Jan 2022 22:01:13: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 22:01:13: #1 finished! INFO @ Sat, 15 Jan 2022 22:01:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:01:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:01:13: 20000000 INFO @ Sat, 15 Jan 2022 22:01:14: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:01:14: 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 22:01:14: 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): 1 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 @ Sat, 15 Jan 2022 22:01:18: 21000000 INFO @ Sat, 15 Jan 2022 22:01:23: 22000000 INFO @ Sat, 15 Jan 2022 22:01:28: 23000000 INFO @ Sat, 15 Jan 2022 22:01:33: 24000000 INFO @ Sat, 15 Jan 2022 22:01:36: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:01:36: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:01:36: #1 total tags in treatment: 11725169 INFO @ Sat, 15 Jan 2022 22:01:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:01:36: #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 22:01:36: #1 tags after filtering in treatment: 8332373 INFO @ Sat, 15 Jan 2022 22:01:36: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 22:01:36: #1 finished! INFO @ Sat, 15 Jan 2022 22:01:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:01:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:01:37: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:01:37: 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 22:01:37: 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): 1 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