Job ID = 10223923 SRX = SRX4623313 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15657398 spots for SRR7767718/SRR7767718.sra Written 15657398 spots for SRR7767718/SRR7767718.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: 00:05:33 15657398 reads; of these: 15657398 (100.00%) were paired; of these: 1612731 (10.30%) aligned concordantly 0 times 12277399 (78.41%) aligned concordantly exactly 1 time 1767268 (11.29%) aligned concordantly >1 times ---- 1612731 pairs aligned concordantly 0 times; of these: 811568 (50.32%) aligned discordantly 1 time ---- 801163 pairs aligned 0 times concordantly or discordantly; of these: 1602326 mates make up the pairs; of these: 1029110 (64.23%) aligned 0 times 268471 (16.76%) aligned exactly 1 time 304745 (19.02%) aligned >1 times 96.71% overall alignment rate Time searching: 00:05:33 Overall time: 00:05:33 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] 173498 / 14811815 = 0.0117 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 08:59:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.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 08:59:49: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:59:49: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:59:55: 1000000 INFO @ Fri, 16 Oct 2020 09:00:00: 2000000 INFO @ Fri, 16 Oct 2020 09:00:05: 3000000 INFO @ Fri, 16 Oct 2020 09:00:10: 4000000 INFO @ Fri, 16 Oct 2020 09:00:15: 5000000 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 09:00:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.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 09:00:19: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:19: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:20: 6000000 INFO @ Fri, 16 Oct 2020 09:00:24: 1000000 INFO @ Fri, 16 Oct 2020 09:00:25: 7000000 INFO @ Fri, 16 Oct 2020 09:00:30: 2000000 INFO @ Fri, 16 Oct 2020 09:00:30: 8000000 INFO @ Fri, 16 Oct 2020 09:00:35: 3000000 INFO @ Fri, 16 Oct 2020 09:00:36: 9000000 INFO @ Fri, 16 Oct 2020 09:00:40: 4000000 INFO @ Fri, 16 Oct 2020 09:00:41: 10000000 INFO @ Fri, 16 Oct 2020 09:00:45: 5000000 INFO @ Fri, 16 Oct 2020 09:00:47: 11000000 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 09:00:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.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 09:00:49: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:49: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:51: 6000000 INFO @ Fri, 16 Oct 2020 09:00:52: 12000000 INFO @ Fri, 16 Oct 2020 09:00:54: 1000000 INFO @ Fri, 16 Oct 2020 09:00:56: 7000000 INFO @ Fri, 16 Oct 2020 09:00:57: 13000000 INFO @ Fri, 16 Oct 2020 09:01:00: 2000000 INFO @ Fri, 16 Oct 2020 09:01:01: 8000000 INFO @ Fri, 16 Oct 2020 09:01:03: 14000000 INFO @ Fri, 16 Oct 2020 09:01:05: 3000000 INFO @ Fri, 16 Oct 2020 09:01:06: 9000000 INFO @ Fri, 16 Oct 2020 09:01:08: 15000000 INFO @ Fri, 16 Oct 2020 09:01:10: 4000000 INFO @ Fri, 16 Oct 2020 09:01:12: 10000000 INFO @ Fri, 16 Oct 2020 09:01:13: 16000000 INFO @ Fri, 16 Oct 2020 09:01:15: 5000000 INFO @ Fri, 16 Oct 2020 09:01:17: 11000000 INFO @ Fri, 16 Oct 2020 09:01:19: 17000000 INFO @ Fri, 16 Oct 2020 09:01:21: 6000000 INFO @ Fri, 16 Oct 2020 09:01:22: 12000000 INFO @ Fri, 16 Oct 2020 09:01:24: 18000000 INFO @ Fri, 16 Oct 2020 09:01:26: 7000000 INFO @ Fri, 16 Oct 2020 09:01:28: 13000000 INFO @ Fri, 16 Oct 2020 09:01:30: 19000000 INFO @ Fri, 16 Oct 2020 09:01:31: 8000000 INFO @ Fri, 16 Oct 2020 09:01:33: 14000000 INFO @ Fri, 16 Oct 2020 09:01:35: 20000000 INFO @ Fri, 16 Oct 2020 09:01:37: 9000000 INFO @ Fri, 16 Oct 2020 09:01:38: 15000000 INFO @ Fri, 16 Oct 2020 09:01:40: 21000000 INFO @ Fri, 16 Oct 2020 09:01:42: 10000000 INFO @ Fri, 16 Oct 2020 09:01:43: 16000000 INFO @ Fri, 16 Oct 2020 09:01:46: 22000000 INFO @ Fri, 16 Oct 2020 09:01:47: 11000000 INFO @ Fri, 16 Oct 2020 09:01:49: 17000000 INFO @ Fri, 16 Oct 2020 09:01:51: 23000000 INFO @ Fri, 16 Oct 2020 09:01:52: 12000000 INFO @ Fri, 16 Oct 2020 09:01:54: 18000000 INFO @ Fri, 16 Oct 2020 09:01:57: 24000000 INFO @ Fri, 16 Oct 2020 09:01:58: 13000000 INFO @ Fri, 16 Oct 2020 09:01:59: 19000000 INFO @ Fri, 16 Oct 2020 09:02:02: 25000000 INFO @ Fri, 16 Oct 2020 09:02:03: 14000000 INFO @ Fri, 16 Oct 2020 09:02:04: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:02:07: 26000000 INFO @ Fri, 16 Oct 2020 09:02:09: 15000000 INFO @ Fri, 16 Oct 2020 09:02:10: 21000000 INFO @ Fri, 16 Oct 2020 09:02:13: 27000000 INFO @ Fri, 16 Oct 2020 09:02:14: 16000000 INFO @ Fri, 16 Oct 2020 09:02:15: 22000000 INFO @ Fri, 16 Oct 2020 09:02:19: 28000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:02:20: 17000000 INFO @ Fri, 16 Oct 2020 09:02:21: 23000000 INFO @ Fri, 16 Oct 2020 09:02:24: 29000000 INFO @ Fri, 16 Oct 2020 09:02:25: 18000000 INFO @ Fri, 16 Oct 2020 09:02:27: 24000000 INFO @ Fri, 16 Oct 2020 09:02:30: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:02:30: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:02:30: #1 total tags in treatment: 13873313 INFO @ Fri, 16 Oct 2020 09:02:30: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:02:30: #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 09:02:30: #1 tags after filtering in treatment: 9765258 INFO @ Fri, 16 Oct 2020 09:02:30: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 16 Oct 2020 09:02:30: #1 finished! INFO @ Fri, 16 Oct 2020 09:02:30: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:02:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:02:30: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:02:30: 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 09:02:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.05_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/SRX4623313/SRX4623313.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:02:31: 19000000 INFO @ Fri, 16 Oct 2020 09:02:32: 25000000 INFO @ Fri, 16 Oct 2020 09:02:36: 20000000 INFO @ Fri, 16 Oct 2020 09:02:37: 26000000 INFO @ Fri, 16 Oct 2020 09:02:42: 21000000 INFO @ Fri, 16 Oct 2020 09:02:43: 27000000 INFO @ Fri, 16 Oct 2020 09:02:47: 22000000 INFO @ Fri, 16 Oct 2020 09:02:48: 28000000 INFO @ Fri, 16 Oct 2020 09:02:53: 23000000 INFO @ Fri, 16 Oct 2020 09:02:54: 29000000 INFO @ Fri, 16 Oct 2020 09:02:58: 24000000 INFO @ Fri, 16 Oct 2020 09:02:59: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:02:59: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:02:59: #1 total tags in treatment: 13873313 INFO @ Fri, 16 Oct 2020 09:02:59: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:02:59: #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 09:02:59: #1 tags after filtering in treatment: 9765258 INFO @ Fri, 16 Oct 2020 09:02:59: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 16 Oct 2020 09:02:59: #1 finished! INFO @ Fri, 16 Oct 2020 09:02:59: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:02:59: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:03:00: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:03:00: 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 09:03:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.10_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/SRX4623313/SRX4623313.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:03:03: 25000000 INFO @ Fri, 16 Oct 2020 09:03:08: 26000000 INFO @ Fri, 16 Oct 2020 09:03:13: 27000000 INFO @ Fri, 16 Oct 2020 09:03:18: 28000000 INFO @ Fri, 16 Oct 2020 09:03:23: 29000000 INFO @ Fri, 16 Oct 2020 09:03:28: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:03:28: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:03:28: #1 total tags in treatment: 13873313 INFO @ Fri, 16 Oct 2020 09:03:28: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:03:28: #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 09:03:28: #1 tags after filtering in treatment: 9765258 INFO @ Fri, 16 Oct 2020 09:03:28: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 16 Oct 2020 09:03:28: #1 finished! INFO @ Fri, 16 Oct 2020 09:03:28: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:03:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:03:28: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:03:28: 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 @ Fri, 16 Oct 2020 09:03:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.20_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/SRX4623313/SRX4623313.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623313/SRX4623313.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling