Job ID = 5791299 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 20,967,419 reads read : 41,934,838 reads written : 41,934,838 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:11:18 20967419 reads; of these: 20967419 (100.00%) were paired; of these: 460457 (2.20%) aligned concordantly 0 times 18029460 (85.99%) aligned concordantly exactly 1 time 2477502 (11.82%) aligned concordantly >1 times ---- 460457 pairs aligned concordantly 0 times; of these: 36725 (7.98%) aligned discordantly 1 time ---- 423732 pairs aligned 0 times concordantly or discordantly; of these: 847464 mates make up the pairs; of these: 659433 (77.81%) aligned 0 times 147303 (17.38%) aligned exactly 1 time 40728 (4.81%) aligned >1 times 98.43% overall alignment rate Time searching: 00:11:18 Overall time: 00:11:19 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] 3725019 / 20512505 = 0.1816 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 @ Wed, 22 Apr 2020 09:54:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.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 @ Wed, 22 Apr 2020 09:54:40: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:54:40: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:54:45: 1000000 INFO @ Wed, 22 Apr 2020 09:54:49: 2000000 INFO @ Wed, 22 Apr 2020 09:54:53: 3000000 INFO @ Wed, 22 Apr 2020 09:54:58: 4000000 INFO @ Wed, 22 Apr 2020 09:55:03: 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 @ Wed, 22 Apr 2020 09:55:08: 6000000 INFO @ Wed, 22 Apr 2020 09:55:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.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 @ Wed, 22 Apr 2020 09:55:10: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:55:10: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:55:14: 7000000 INFO @ Wed, 22 Apr 2020 09:55:15: 1000000 INFO @ Wed, 22 Apr 2020 09:55:19: 8000000 INFO @ Wed, 22 Apr 2020 09:55:21: 2000000 INFO @ Wed, 22 Apr 2020 09:55:24: 9000000 INFO @ Wed, 22 Apr 2020 09:55:27: 3000000 INFO @ Wed, 22 Apr 2020 09:55:30: 10000000 INFO @ Wed, 22 Apr 2020 09:55:33: 4000000 INFO @ Wed, 22 Apr 2020 09:55:35: 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 @ Wed, 22 Apr 2020 09:55:39: 5000000 INFO @ Wed, 22 Apr 2020 09:55:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.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 @ Wed, 22 Apr 2020 09:55:40: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:55:40: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:55:40: 12000000 INFO @ Wed, 22 Apr 2020 09:55:44: 6000000 INFO @ Wed, 22 Apr 2020 09:55:45: 1000000 INFO @ Wed, 22 Apr 2020 09:55:46: 13000000 INFO @ Wed, 22 Apr 2020 09:55:49: 7000000 INFO @ Wed, 22 Apr 2020 09:55:51: 14000000 INFO @ Wed, 22 Apr 2020 09:55:52: 2000000 INFO @ Wed, 22 Apr 2020 09:55:55: 8000000 INFO @ Wed, 22 Apr 2020 09:55:56: 15000000 INFO @ Wed, 22 Apr 2020 09:56:00: 3000000 INFO @ Wed, 22 Apr 2020 09:56:01: 9000000 INFO @ Wed, 22 Apr 2020 09:56:02: 16000000 INFO @ Wed, 22 Apr 2020 09:56:05: 4000000 INFO @ Wed, 22 Apr 2020 09:56:06: 10000000 INFO @ Wed, 22 Apr 2020 09:56:07: 17000000 INFO @ Wed, 22 Apr 2020 09:56:11: 5000000 INFO @ Wed, 22 Apr 2020 09:56:12: 11000000 INFO @ Wed, 22 Apr 2020 09:56:13: 18000000 INFO @ Wed, 22 Apr 2020 09:56:18: 19000000 INFO @ Wed, 22 Apr 2020 09:56:18: 12000000 INFO @ Wed, 22 Apr 2020 09:56:18: 6000000 INFO @ Wed, 22 Apr 2020 09:56:23: 20000000 INFO @ Wed, 22 Apr 2020 09:56:24: 7000000 INFO @ Wed, 22 Apr 2020 09:56:24: 13000000 INFO @ Wed, 22 Apr 2020 09:56:28: 21000000 INFO @ Wed, 22 Apr 2020 09:56:29: 8000000 INFO @ Wed, 22 Apr 2020 09:56:30: 14000000 INFO @ Wed, 22 Apr 2020 09:56:34: 22000000 INFO @ Wed, 22 Apr 2020 09:56:36: 9000000 INFO @ Wed, 22 Apr 2020 09:56:36: 15000000 INFO @ Wed, 22 Apr 2020 09:56:39: 23000000 INFO @ Wed, 22 Apr 2020 09:56:41: 16000000 INFO @ Wed, 22 Apr 2020 09:56:42: 10000000 INFO @ Wed, 22 Apr 2020 09:56:44: 24000000 INFO @ Wed, 22 Apr 2020 09:56:47: 17000000 INFO @ Wed, 22 Apr 2020 09:56:48: 11000000 INFO @ Wed, 22 Apr 2020 09:56:50: 25000000 INFO @ Wed, 22 Apr 2020 09:56:53: 18000000 INFO @ Wed, 22 Apr 2020 09:56:54: 12000000 INFO @ Wed, 22 Apr 2020 09:56:55: 26000000 INFO @ Wed, 22 Apr 2020 09:56:59: 19000000 INFO @ Wed, 22 Apr 2020 09:57:00: 27000000 INFO @ Wed, 22 Apr 2020 09:57:00: 13000000 INFO @ Wed, 22 Apr 2020 09:57:05: 20000000 INFO @ Wed, 22 Apr 2020 09:57:05: 28000000 INFO @ Wed, 22 Apr 2020 09:57:06: 14000000 INFO @ Wed, 22 Apr 2020 09:57:10: 29000000 INFO @ Wed, 22 Apr 2020 09:57:11: 21000000 INFO @ Wed, 22 Apr 2020 09:57:12: 15000000 INFO @ Wed, 22 Apr 2020 09:57:16: 30000000 INFO @ Wed, 22 Apr 2020 09:57:16: 22000000 INFO @ Wed, 22 Apr 2020 09:57:18: 16000000 INFO @ Wed, 22 Apr 2020 09:57:21: 31000000 INFO @ Wed, 22 Apr 2020 09:57:22: 23000000 INFO @ Wed, 22 Apr 2020 09:57:24: 17000000 INFO @ Wed, 22 Apr 2020 09:57:26: 32000000 INFO @ Wed, 22 Apr 2020 09:57:28: 24000000 INFO @ Wed, 22 Apr 2020 09:57:30: 18000000 INFO @ Wed, 22 Apr 2020 09:57:31: 33000000 INFO @ Wed, 22 Apr 2020 09:57:34: 25000000 INFO @ Wed, 22 Apr 2020 09:57:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:57:36: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:57:36: #1 total tags in treatment: 16782803 INFO @ Wed, 22 Apr 2020 09:57:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:57:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:57:36: #1 tags after filtering in treatment: 11108880 INFO @ Wed, 22 Apr 2020 09:57:36: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Apr 2020 09:57:36: #1 finished! INFO @ Wed, 22 Apr 2020 09:57:36: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:57:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:57:36: 19000000 INFO @ Wed, 22 Apr 2020 09:57:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:57:37: 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 @ Wed, 22 Apr 2020 09:57:37: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:57:39: 26000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:57:42: 20000000 INFO @ Wed, 22 Apr 2020 09:57:45: 27000000 INFO @ Wed, 22 Apr 2020 09:57:48: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:57:51: 28000000 INFO @ Wed, 22 Apr 2020 09:57:53: 22000000 INFO @ Wed, 22 Apr 2020 09:57:57: 29000000 INFO @ Wed, 22 Apr 2020 09:57:59: 23000000 INFO @ Wed, 22 Apr 2020 09:58:02: 30000000 INFO @ Wed, 22 Apr 2020 09:58:05: 24000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:58:08: 31000000 INFO @ Wed, 22 Apr 2020 09:58:11: 25000000 INFO @ Wed, 22 Apr 2020 09:58:14: 32000000 INFO @ Wed, 22 Apr 2020 09:58:16: 26000000 INFO @ Wed, 22 Apr 2020 09:58:20: 33000000 INFO @ Wed, 22 Apr 2020 09:58:22: 27000000 INFO @ Wed, 22 Apr 2020 09:58:24: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:58:24: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:58:24: #1 total tags in treatment: 16782803 INFO @ Wed, 22 Apr 2020 09:58:24: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:58:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:58:25: #1 tags after filtering in treatment: 11108880 INFO @ Wed, 22 Apr 2020 09:58:25: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Apr 2020 09:58:25: #1 finished! INFO @ Wed, 22 Apr 2020 09:58:25: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:58:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:58:25: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:58:25: 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 @ Wed, 22 Apr 2020 09:58:25: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:58:28: 28000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.10_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/SRX7409556/SRX7409556.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:58:33: 29000000 INFO @ Wed, 22 Apr 2020 09:58:39: 30000000 INFO @ Wed, 22 Apr 2020 09:58:44: 31000000 INFO @ Wed, 22 Apr 2020 09:58:50: 32000000 INFO @ Wed, 22 Apr 2020 09:58:56: 33000000 INFO @ Wed, 22 Apr 2020 09:59:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 09:59:00: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 09:59:00: #1 total tags in treatment: 16782803 INFO @ Wed, 22 Apr 2020 09:59:00: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:59:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 09:59:00: #1 tags after filtering in treatment: 11108880 INFO @ Wed, 22 Apr 2020 09:59:00: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Apr 2020 09:59:00: #1 finished! INFO @ Wed, 22 Apr 2020 09:59:00: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:59:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:59:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:59:01: 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 @ Wed, 22 Apr 2020 09:59:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.20_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/SRX7409556/SRX7409556.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409556/SRX7409556.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling