Job ID = 5791645 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 25,491,377 reads read : 50,982,754 reads written : 50,982,754 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: 00:12:50 25491377 reads; of these: 25491377 (100.00%) were paired; of these: 680931 (2.67%) aligned concordantly 0 times 22667001 (88.92%) aligned concordantly exactly 1 time 2143445 (8.41%) aligned concordantly >1 times ---- 680931 pairs aligned concordantly 0 times; of these: 29950 (4.40%) aligned discordantly 1 time ---- 650981 pairs aligned 0 times concordantly or discordantly; of these: 1301962 mates make up the pairs; of these: 1101038 (84.57%) aligned 0 times 169976 (13.06%) aligned exactly 1 time 30948 (2.38%) aligned >1 times 97.84% overall alignment rate Time searching: 00:12:50 Overall time: 00:12:50 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 24 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] 3284056 / 24817443 = 0.1323 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 10:37:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.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 10:37:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:37:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:37:48: 1000000 INFO @ Wed, 22 Apr 2020 10:37:52: 2000000 INFO @ Wed, 22 Apr 2020 10:37:57: 3000000 INFO @ Wed, 22 Apr 2020 10:38:01: 4000000 INFO @ Wed, 22 Apr 2020 10:38:05: 5000000 INFO @ Wed, 22 Apr 2020 10:38:10: 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 @ Wed, 22 Apr 2020 10:38:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.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 10:38:13: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:38:13: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:38:14: 7000000 INFO @ Wed, 22 Apr 2020 10:38:18: 1000000 INFO @ Wed, 22 Apr 2020 10:38:19: 8000000 INFO @ Wed, 22 Apr 2020 10:38:22: 2000000 INFO @ Wed, 22 Apr 2020 10:38:24: 9000000 INFO @ Wed, 22 Apr 2020 10:38:27: 3000000 INFO @ Wed, 22 Apr 2020 10:38:28: 10000000 INFO @ Wed, 22 Apr 2020 10:38:31: 4000000 INFO @ Wed, 22 Apr 2020 10:38:33: 11000000 INFO @ Wed, 22 Apr 2020 10:38:36: 5000000 INFO @ Wed, 22 Apr 2020 10:38:38: 12000000 INFO @ Wed, 22 Apr 2020 10:38:40: 6000000 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 10:38:42: 13000000 INFO @ Wed, 22 Apr 2020 10:38:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.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 10:38:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:38:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:38:45: 7000000 INFO @ Wed, 22 Apr 2020 10:38:47: 14000000 INFO @ Wed, 22 Apr 2020 10:38:48: 1000000 INFO @ Wed, 22 Apr 2020 10:38:50: 8000000 INFO @ Wed, 22 Apr 2020 10:38:51: 15000000 INFO @ Wed, 22 Apr 2020 10:38:52: 2000000 INFO @ Wed, 22 Apr 2020 10:38:54: 9000000 INFO @ Wed, 22 Apr 2020 10:38:56: 16000000 INFO @ Wed, 22 Apr 2020 10:38:57: 3000000 INFO @ Wed, 22 Apr 2020 10:38:59: 10000000 INFO @ Wed, 22 Apr 2020 10:39:00: 17000000 INFO @ Wed, 22 Apr 2020 10:39:02: 4000000 INFO @ Wed, 22 Apr 2020 10:39:03: 11000000 INFO @ Wed, 22 Apr 2020 10:39:05: 18000000 INFO @ Wed, 22 Apr 2020 10:39:06: 5000000 INFO @ Wed, 22 Apr 2020 10:39:08: 12000000 INFO @ Wed, 22 Apr 2020 10:39:10: 19000000 INFO @ Wed, 22 Apr 2020 10:39:11: 6000000 INFO @ Wed, 22 Apr 2020 10:39:12: 13000000 INFO @ Wed, 22 Apr 2020 10:39:14: 20000000 INFO @ Wed, 22 Apr 2020 10:39:15: 7000000 INFO @ Wed, 22 Apr 2020 10:39:17: 14000000 INFO @ Wed, 22 Apr 2020 10:39:19: 21000000 INFO @ Wed, 22 Apr 2020 10:39:20: 8000000 INFO @ Wed, 22 Apr 2020 10:39:21: 15000000 INFO @ Wed, 22 Apr 2020 10:39:23: 22000000 INFO @ Wed, 22 Apr 2020 10:39:24: 9000000 INFO @ Wed, 22 Apr 2020 10:39:26: 16000000 INFO @ Wed, 22 Apr 2020 10:39:28: 23000000 INFO @ Wed, 22 Apr 2020 10:39:29: 10000000 INFO @ Wed, 22 Apr 2020 10:39:30: 17000000 INFO @ Wed, 22 Apr 2020 10:39:32: 24000000 INFO @ Wed, 22 Apr 2020 10:39:33: 11000000 INFO @ Wed, 22 Apr 2020 10:39:35: 18000000 INFO @ Wed, 22 Apr 2020 10:39:37: 25000000 INFO @ Wed, 22 Apr 2020 10:39:38: 12000000 INFO @ Wed, 22 Apr 2020 10:39:39: 19000000 INFO @ Wed, 22 Apr 2020 10:39:41: 26000000 INFO @ Wed, 22 Apr 2020 10:39:42: 13000000 INFO @ Wed, 22 Apr 2020 10:39:44: 20000000 INFO @ Wed, 22 Apr 2020 10:39:46: 27000000 INFO @ Wed, 22 Apr 2020 10:39:47: 14000000 INFO @ Wed, 22 Apr 2020 10:39:48: 21000000 INFO @ Wed, 22 Apr 2020 10:39:50: 28000000 INFO @ Wed, 22 Apr 2020 10:39:51: 15000000 INFO @ Wed, 22 Apr 2020 10:39:53: 22000000 INFO @ Wed, 22 Apr 2020 10:39:55: 29000000 INFO @ Wed, 22 Apr 2020 10:39:56: 16000000 INFO @ Wed, 22 Apr 2020 10:39:57: 23000000 INFO @ Wed, 22 Apr 2020 10:40:00: 30000000 INFO @ Wed, 22 Apr 2020 10:40:00: 17000000 INFO @ Wed, 22 Apr 2020 10:40:02: 24000000 INFO @ Wed, 22 Apr 2020 10:40:04: 31000000 INFO @ Wed, 22 Apr 2020 10:40:05: 18000000 INFO @ Wed, 22 Apr 2020 10:40:06: 25000000 INFO @ Wed, 22 Apr 2020 10:40:09: 32000000 INFO @ Wed, 22 Apr 2020 10:40:09: 19000000 INFO @ Wed, 22 Apr 2020 10:40:11: 26000000 INFO @ Wed, 22 Apr 2020 10:40:13: 33000000 INFO @ Wed, 22 Apr 2020 10:40:14: 20000000 INFO @ Wed, 22 Apr 2020 10:40:16: 27000000 INFO @ Wed, 22 Apr 2020 10:40:18: 34000000 INFO @ Wed, 22 Apr 2020 10:40:18: 21000000 INFO @ Wed, 22 Apr 2020 10:40:20: 28000000 INFO @ Wed, 22 Apr 2020 10:40:22: 35000000 INFO @ Wed, 22 Apr 2020 10:40:23: 22000000 INFO @ Wed, 22 Apr 2020 10:40:25: 29000000 INFO @ Wed, 22 Apr 2020 10:40:27: 36000000 INFO @ Wed, 22 Apr 2020 10:40:27: 23000000 INFO @ Wed, 22 Apr 2020 10:40:29: 30000000 INFO @ Wed, 22 Apr 2020 10:40:31: 37000000 INFO @ Wed, 22 Apr 2020 10:40:32: 24000000 INFO @ Wed, 22 Apr 2020 10:40:34: 31000000 INFO @ Wed, 22 Apr 2020 10:40:36: 38000000 INFO @ Wed, 22 Apr 2020 10:40:36: 25000000 INFO @ Wed, 22 Apr 2020 10:40:38: 32000000 INFO @ Wed, 22 Apr 2020 10:40:40: 39000000 INFO @ Wed, 22 Apr 2020 10:40:41: 26000000 INFO @ Wed, 22 Apr 2020 10:40:43: 33000000 INFO @ Wed, 22 Apr 2020 10:40:45: 40000000 INFO @ Wed, 22 Apr 2020 10:40:45: 27000000 INFO @ Wed, 22 Apr 2020 10:40:47: 34000000 INFO @ Wed, 22 Apr 2020 10:40:50: 41000000 INFO @ Wed, 22 Apr 2020 10:40:50: 28000000 INFO @ Wed, 22 Apr 2020 10:40:52: 35000000 INFO @ Wed, 22 Apr 2020 10:40:54: 42000000 INFO @ Wed, 22 Apr 2020 10:40:54: 29000000 INFO @ Wed, 22 Apr 2020 10:40:56: 36000000 INFO @ Wed, 22 Apr 2020 10:40:59: 43000000 INFO @ Wed, 22 Apr 2020 10:40:59: 30000000 INFO @ Wed, 22 Apr 2020 10:41:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:41:00: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:41:00: #1 total tags in treatment: 21527363 INFO @ Wed, 22 Apr 2020 10:41:00: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:41:00: #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 10:41:01: #1 tags after filtering in treatment: 11620467 INFO @ Wed, 22 Apr 2020 10:41:01: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Apr 2020 10:41:01: #1 finished! INFO @ Wed, 22 Apr 2020 10:41:01: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:41:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:41:01: 37000000 INFO @ Wed, 22 Apr 2020 10:41:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:41:01: 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 10:41:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.05_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/SRX7409609/SRX7409609.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:41:03: 31000000 INFO @ Wed, 22 Apr 2020 10:41:06: 38000000 INFO @ Wed, 22 Apr 2020 10:41:08: 32000000 INFO @ Wed, 22 Apr 2020 10:41:10: 39000000 INFO @ Wed, 22 Apr 2020 10:41:12: 33000000 INFO @ Wed, 22 Apr 2020 10:41:15: 40000000 INFO @ Wed, 22 Apr 2020 10:41:17: 34000000 INFO @ Wed, 22 Apr 2020 10:41:20: 41000000 INFO @ Wed, 22 Apr 2020 10:41:21: 35000000 INFO @ Wed, 22 Apr 2020 10:41:24: 42000000 INFO @ Wed, 22 Apr 2020 10:41:26: 36000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:41:29: 43000000 INFO @ Wed, 22 Apr 2020 10:41:30: 37000000 INFO @ Wed, 22 Apr 2020 10:41:31: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:41:31: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:41:31: #1 total tags in treatment: 21527363 INFO @ Wed, 22 Apr 2020 10:41:31: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:41:31: #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 10:41:31: #1 tags after filtering in treatment: 11620467 INFO @ Wed, 22 Apr 2020 10:41:31: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Apr 2020 10:41:31: #1 finished! INFO @ Wed, 22 Apr 2020 10:41:31: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:41:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:41:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:41:32: 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 10:41:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.10_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/SRX7409609/SRX7409609.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:41:35: 38000000 INFO @ Wed, 22 Apr 2020 10:41:39: 39000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:41:44: 40000000 INFO @ Wed, 22 Apr 2020 10:41:48: 41000000 INFO @ Wed, 22 Apr 2020 10:41:52: 42000000 INFO @ Wed, 22 Apr 2020 10:41:57: 43000000 INFO @ Wed, 22 Apr 2020 10:41:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:41:58: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:41:58: #1 total tags in treatment: 21527363 INFO @ Wed, 22 Apr 2020 10:41:58: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:41:58: #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 10:41:59: #1 tags after filtering in treatment: 11620467 INFO @ Wed, 22 Apr 2020 10:41:59: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Apr 2020 10:41:59: #1 finished! INFO @ Wed, 22 Apr 2020 10:41:59: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:41:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:42:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:42:00: 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 @ Wed, 22 Apr 2020 10:42:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.20_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/SRX7409609/SRX7409609.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409609/SRX7409609.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling