Job ID = 5791113 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 22,222,987 reads read : 44,445,974 reads written : 44,445,974 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: 00:10:03 22222987 reads; of these: 22222987 (100.00%) were paired; of these: 1675020 (7.54%) aligned concordantly 0 times 18681676 (84.06%) aligned concordantly exactly 1 time 1866291 (8.40%) aligned concordantly >1 times ---- 1675020 pairs aligned concordantly 0 times; of these: 179760 (10.73%) aligned discordantly 1 time ---- 1495260 pairs aligned 0 times concordantly or discordantly; of these: 2990520 mates make up the pairs; of these: 2418922 (80.89%) aligned 0 times 369361 (12.35%) aligned exactly 1 time 202237 (6.76%) aligned >1 times 94.56% overall alignment rate Time searching: 00:10:03 Overall time: 00:10:03 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] 434143 / 20717709 = 0.0210 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 09:11:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.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 09:11:31: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:11:31: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:11:36: 1000000 INFO @ Wed, 22 Apr 2020 09:11:41: 2000000 INFO @ Wed, 22 Apr 2020 09:11:46: 3000000 INFO @ Wed, 22 Apr 2020 09:11:51: 4000000 INFO @ Wed, 22 Apr 2020 09:11:56: 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 09:12:01: 6000000 INFO @ Wed, 22 Apr 2020 09:12:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.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 09:12:01: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:12:01: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:12:06: 7000000 INFO @ Wed, 22 Apr 2020 09:12:06: 1000000 INFO @ Wed, 22 Apr 2020 09:12:12: 8000000 INFO @ Wed, 22 Apr 2020 09:12:12: 2000000 INFO @ Wed, 22 Apr 2020 09:12:17: 9000000 INFO @ Wed, 22 Apr 2020 09:12:17: 3000000 INFO @ Wed, 22 Apr 2020 09:12:23: 10000000 INFO @ Wed, 22 Apr 2020 09:12:23: 4000000 INFO @ Wed, 22 Apr 2020 09:12:28: 11000000 INFO @ Wed, 22 Apr 2020 09:12:29: 5000000 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 09:12:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.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 09:12:31: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:12:31: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:12:34: 12000000 INFO @ Wed, 22 Apr 2020 09:12:34: 6000000 INFO @ Wed, 22 Apr 2020 09:12:36: 1000000 INFO @ Wed, 22 Apr 2020 09:12:40: 13000000 INFO @ Wed, 22 Apr 2020 09:12:40: 7000000 INFO @ Wed, 22 Apr 2020 09:12:42: 2000000 INFO @ Wed, 22 Apr 2020 09:12:45: 14000000 INFO @ Wed, 22 Apr 2020 09:12:45: 8000000 INFO @ Wed, 22 Apr 2020 09:12:48: 3000000 INFO @ Wed, 22 Apr 2020 09:12:51: 15000000 INFO @ Wed, 22 Apr 2020 09:12:51: 9000000 INFO @ Wed, 22 Apr 2020 09:12:53: 4000000 INFO @ Wed, 22 Apr 2020 09:12:57: 16000000 INFO @ Wed, 22 Apr 2020 09:12:57: 10000000 INFO @ Wed, 22 Apr 2020 09:12:59: 5000000 INFO @ Wed, 22 Apr 2020 09:13:03: 11000000 INFO @ Wed, 22 Apr 2020 09:13:03: 17000000 INFO @ Wed, 22 Apr 2020 09:13:05: 6000000 INFO @ Wed, 22 Apr 2020 09:13:08: 12000000 INFO @ Wed, 22 Apr 2020 09:13:08: 18000000 INFO @ Wed, 22 Apr 2020 09:13:10: 7000000 INFO @ Wed, 22 Apr 2020 09:13:14: 13000000 INFO @ Wed, 22 Apr 2020 09:13:14: 19000000 INFO @ Wed, 22 Apr 2020 09:13:16: 8000000 INFO @ Wed, 22 Apr 2020 09:13:20: 14000000 INFO @ Wed, 22 Apr 2020 09:13:20: 20000000 INFO @ Wed, 22 Apr 2020 09:13:22: 9000000 INFO @ Wed, 22 Apr 2020 09:13:25: 15000000 INFO @ Wed, 22 Apr 2020 09:13:25: 21000000 INFO @ Wed, 22 Apr 2020 09:13:27: 10000000 INFO @ Wed, 22 Apr 2020 09:13:31: 22000000 INFO @ Wed, 22 Apr 2020 09:13:31: 16000000 INFO @ Wed, 22 Apr 2020 09:13:33: 11000000 INFO @ Wed, 22 Apr 2020 09:13:36: 23000000 INFO @ Wed, 22 Apr 2020 09:13:37: 17000000 INFO @ Wed, 22 Apr 2020 09:13:39: 12000000 INFO @ Wed, 22 Apr 2020 09:13:42: 24000000 INFO @ Wed, 22 Apr 2020 09:13:43: 18000000 INFO @ Wed, 22 Apr 2020 09:13:44: 13000000 INFO @ Wed, 22 Apr 2020 09:13:48: 25000000 INFO @ Wed, 22 Apr 2020 09:13:48: 19000000 INFO @ Wed, 22 Apr 2020 09:13:50: 14000000 INFO @ Wed, 22 Apr 2020 09:13:53: 26000000 INFO @ Wed, 22 Apr 2020 09:13:54: 20000000 INFO @ Wed, 22 Apr 2020 09:13:56: 15000000 INFO @ Wed, 22 Apr 2020 09:13:59: 27000000 INFO @ Wed, 22 Apr 2020 09:14:00: 21000000 INFO @ Wed, 22 Apr 2020 09:14:01: 16000000 INFO @ Wed, 22 Apr 2020 09:14:05: 28000000 INFO @ Wed, 22 Apr 2020 09:14:05: 22000000 INFO @ Wed, 22 Apr 2020 09:14:07: 17000000 INFO @ Wed, 22 Apr 2020 09:14:10: 29000000 INFO @ Wed, 22 Apr 2020 09:14:11: 23000000 INFO @ Wed, 22 Apr 2020 09:14:13: 18000000 INFO @ Wed, 22 Apr 2020 09:14:16: 30000000 INFO @ Wed, 22 Apr 2020 09:14:17: 24000000 INFO @ Wed, 22 Apr 2020 09:14:18: 19000000 INFO @ Wed, 22 Apr 2020 09:14:22: 31000000 INFO @ Wed, 22 Apr 2020 09:14:22: 25000000 INFO @ Wed, 22 Apr 2020 09:14:24: 20000000 INFO @ Wed, 22 Apr 2020 09:14:27: 32000000 INFO @ Wed, 22 Apr 2020 09:14:28: 26000000 INFO @ Wed, 22 Apr 2020 09:14:30: 21000000 INFO @ Wed, 22 Apr 2020 09:14:33: 33000000 INFO @ Wed, 22 Apr 2020 09:14:33: 27000000 INFO @ Wed, 22 Apr 2020 09:14:35: 22000000 INFO @ Wed, 22 Apr 2020 09:14:38: 34000000 INFO @ Wed, 22 Apr 2020 09:14:39: 28000000 INFO @ Wed, 22 Apr 2020 09:14:41: 23000000 INFO @ Wed, 22 Apr 2020 09:14:44: 35000000 INFO @ Wed, 22 Apr 2020 09:14:44: 29000000 INFO @ Wed, 22 Apr 2020 09:14:47: 24000000 INFO @ Wed, 22 Apr 2020 09:14:50: 30000000 INFO @ Wed, 22 Apr 2020 09:14:50: 36000000 INFO @ Wed, 22 Apr 2020 09:14:52: 25000000 INFO @ Wed, 22 Apr 2020 09:14:56: 31000000 INFO @ Wed, 22 Apr 2020 09:14:56: 37000000 INFO @ Wed, 22 Apr 2020 09:14:58: 26000000 INFO @ Wed, 22 Apr 2020 09:15:01: 32000000 INFO @ Wed, 22 Apr 2020 09:15:01: 38000000 INFO @ Wed, 22 Apr 2020 09:15:03: 27000000 INFO @ Wed, 22 Apr 2020 09:15:07: 33000000 INFO @ Wed, 22 Apr 2020 09:15:07: 39000000 INFO @ Wed, 22 Apr 2020 09:15:09: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:15:12: 34000000 INFO @ Wed, 22 Apr 2020 09:15:13: 40000000 INFO @ Wed, 22 Apr 2020 09:15:15: 29000000 INFO @ Wed, 22 Apr 2020 09:15:18: 35000000 INFO @ Wed, 22 Apr 2020 09:15:18: 41000000 INFO @ Wed, 22 Apr 2020 09:15:19: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 09:15:19: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 09:15:19: #1 total tags in treatment: 20114489 INFO @ Wed, 22 Apr 2020 09:15:19: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:15:19: #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 09:15:20: #1 tags after filtering in treatment: 11671088 INFO @ Wed, 22 Apr 2020 09:15:20: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 09:15:20: #1 finished! INFO @ Wed, 22 Apr 2020 09:15:20: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:15:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:15:20: 30000000 INFO @ Wed, 22 Apr 2020 09:15:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:15:20: 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 09:15:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.05_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/SRX6078424/SRX6078424.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:15:24: 36000000 INFO @ Wed, 22 Apr 2020 09:15:26: 31000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:15:29: 37000000 INFO @ Wed, 22 Apr 2020 09:15:31: 32000000 INFO @ Wed, 22 Apr 2020 09:15:35: 38000000 INFO @ Wed, 22 Apr 2020 09:15:37: 33000000 INFO @ Wed, 22 Apr 2020 09:15:40: 39000000 INFO @ Wed, 22 Apr 2020 09:15:42: 34000000 INFO @ Wed, 22 Apr 2020 09:15:46: 40000000 INFO @ Wed, 22 Apr 2020 09:15:48: 35000000 INFO @ Wed, 22 Apr 2020 09:15:51: 41000000 INFO @ Wed, 22 Apr 2020 09:15:52: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 09:15:52: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 09:15:52: #1 total tags in treatment: 20114489 INFO @ Wed, 22 Apr 2020 09:15:52: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:15:52: #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 09:15:53: #1 tags after filtering in treatment: 11671088 INFO @ Wed, 22 Apr 2020 09:15:53: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 09:15:53: #1 finished! INFO @ Wed, 22 Apr 2020 09:15:53: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:15:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:15:53: 36000000 INFO @ Wed, 22 Apr 2020 09:15:53: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:15:53: 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 09:15:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.10_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/SRX6078424/SRX6078424.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:15:59: 37000000 INFO @ Wed, 22 Apr 2020 09:16:04: 38000000 INFO @ Wed, 22 Apr 2020 09:16:09: 39000000 INFO @ Wed, 22 Apr 2020 09:16:14: 40000000 INFO @ Wed, 22 Apr 2020 09:16:20: 41000000 INFO @ Wed, 22 Apr 2020 09:16:21: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 09:16:21: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 09:16:21: #1 total tags in treatment: 20114489 INFO @ Wed, 22 Apr 2020 09:16:21: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:16:21: #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 09:16:21: #1 tags after filtering in treatment: 11671088 INFO @ Wed, 22 Apr 2020 09:16:21: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 09:16:21: #1 finished! INFO @ Wed, 22 Apr 2020 09:16:21: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:16:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:16:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:16:22: 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 09:16:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.20_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/SRX6078424/SRX6078424.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078424/SRX6078424.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling