Job ID = 7118205 SRX = SRX8639581 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:11:29 prefetch.2.10.7: 1) Downloading 'SRR12117019'... 2020-07-22T07:11:29 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:18:35 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:18:35 prefetch.2.10.7: 1) 'SRR12117019' was downloaded successfully 2020-07-22T07:18:35 prefetch.2.10.7: 'SRR12117019' has 0 unresolved dependencies Read 33995989 spots for SRR12117019/SRR12117019.sra Written 33995989 spots for SRR12117019/SRR12117019.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: 00:12:30 33995989 reads; of these: 33995989 (100.00%) were paired; of these: 14607427 (42.97%) aligned concordantly 0 times 17424211 (51.25%) aligned concordantly exactly 1 time 1964351 (5.78%) aligned concordantly >1 times ---- 14607427 pairs aligned concordantly 0 times; of these: 269141 (1.84%) aligned discordantly 1 time ---- 14338286 pairs aligned 0 times concordantly or discordantly; of these: 28676572 mates make up the pairs; of these: 28313956 (98.74%) aligned 0 times 274250 (0.96%) aligned exactly 1 time 88366 (0.31%) aligned >1 times 58.36% overall alignment rate Time searching: 00:12:30 Overall time: 00:12:30 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] 302478 / 19637462 = 0.0154 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 Jul 2020 16:41:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.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 Jul 2020 16:41:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:41:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:41:47: 1000000 INFO @ Wed, 22 Jul 2020 16:41:51: 2000000 INFO @ Wed, 22 Jul 2020 16:41:56: 3000000 INFO @ Wed, 22 Jul 2020 16:42:01: 4000000 INFO @ Wed, 22 Jul 2020 16:42:06: 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 Jul 2020 16:42:10: 6000000 INFO @ Wed, 22 Jul 2020 16:42:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.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 Jul 2020 16:42:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:42:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:42:15: 7000000 INFO @ Wed, 22 Jul 2020 16:42:17: 1000000 INFO @ Wed, 22 Jul 2020 16:42:21: 8000000 INFO @ Wed, 22 Jul 2020 16:42:22: 2000000 INFO @ Wed, 22 Jul 2020 16:42:26: 9000000 INFO @ Wed, 22 Jul 2020 16:42:27: 3000000 INFO @ Wed, 22 Jul 2020 16:42:31: 10000000 INFO @ Wed, 22 Jul 2020 16:42:33: 4000000 INFO @ Wed, 22 Jul 2020 16:42:36: 11000000 INFO @ Wed, 22 Jul 2020 16:42:38: 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 Jul 2020 16:42:41: 12000000 INFO @ Wed, 22 Jul 2020 16:42:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.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 Jul 2020 16:42:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:42:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:42:43: 6000000 INFO @ Wed, 22 Jul 2020 16:42:46: 13000000 INFO @ Wed, 22 Jul 2020 16:42:47: 1000000 INFO @ Wed, 22 Jul 2020 16:42:48: 7000000 INFO @ Wed, 22 Jul 2020 16:42:51: 14000000 INFO @ Wed, 22 Jul 2020 16:42:52: 2000000 INFO @ Wed, 22 Jul 2020 16:42:53: 8000000 INFO @ Wed, 22 Jul 2020 16:42:56: 15000000 INFO @ Wed, 22 Jul 2020 16:42:57: 3000000 INFO @ Wed, 22 Jul 2020 16:42:58: 9000000 INFO @ Wed, 22 Jul 2020 16:43:02: 16000000 INFO @ Wed, 22 Jul 2020 16:43:02: 4000000 INFO @ Wed, 22 Jul 2020 16:43:03: 10000000 INFO @ Wed, 22 Jul 2020 16:43:07: 17000000 INFO @ Wed, 22 Jul 2020 16:43:07: 5000000 INFO @ Wed, 22 Jul 2020 16:43:09: 11000000 INFO @ Wed, 22 Jul 2020 16:43:12: 18000000 INFO @ Wed, 22 Jul 2020 16:43:12: 6000000 INFO @ Wed, 22 Jul 2020 16:43:14: 12000000 INFO @ Wed, 22 Jul 2020 16:43:17: 19000000 INFO @ Wed, 22 Jul 2020 16:43:17: 7000000 INFO @ Wed, 22 Jul 2020 16:43:19: 13000000 INFO @ Wed, 22 Jul 2020 16:43:22: 20000000 INFO @ Wed, 22 Jul 2020 16:43:22: 8000000 INFO @ Wed, 22 Jul 2020 16:43:24: 14000000 INFO @ Wed, 22 Jul 2020 16:43:27: 21000000 INFO @ Wed, 22 Jul 2020 16:43:27: 9000000 INFO @ Wed, 22 Jul 2020 16:43:29: 15000000 INFO @ Wed, 22 Jul 2020 16:43:32: 22000000 INFO @ Wed, 22 Jul 2020 16:43:33: 10000000 INFO @ Wed, 22 Jul 2020 16:43:34: 16000000 INFO @ Wed, 22 Jul 2020 16:43:37: 23000000 INFO @ Wed, 22 Jul 2020 16:43:38: 11000000 INFO @ Wed, 22 Jul 2020 16:43:39: 17000000 INFO @ Wed, 22 Jul 2020 16:43:43: 12000000 INFO @ Wed, 22 Jul 2020 16:43:43: 24000000 INFO @ Wed, 22 Jul 2020 16:43:44: 18000000 INFO @ Wed, 22 Jul 2020 16:43:48: 13000000 INFO @ Wed, 22 Jul 2020 16:43:48: 25000000 INFO @ Wed, 22 Jul 2020 16:43:50: 19000000 INFO @ Wed, 22 Jul 2020 16:43:53: 14000000 INFO @ Wed, 22 Jul 2020 16:43:53: 26000000 INFO @ Wed, 22 Jul 2020 16:43:55: 20000000 INFO @ Wed, 22 Jul 2020 16:43:58: 15000000 INFO @ Wed, 22 Jul 2020 16:43:58: 27000000 INFO @ Wed, 22 Jul 2020 16:44:00: 21000000 INFO @ Wed, 22 Jul 2020 16:44:03: 16000000 INFO @ Wed, 22 Jul 2020 16:44:03: 28000000 INFO @ Wed, 22 Jul 2020 16:44:05: 22000000 INFO @ Wed, 22 Jul 2020 16:44:08: 17000000 INFO @ Wed, 22 Jul 2020 16:44:09: 29000000 INFO @ Wed, 22 Jul 2020 16:44:10: 23000000 INFO @ Wed, 22 Jul 2020 16:44:13: 18000000 INFO @ Wed, 22 Jul 2020 16:44:14: 30000000 INFO @ Wed, 22 Jul 2020 16:44:15: 24000000 INFO @ Wed, 22 Jul 2020 16:44:18: 19000000 INFO @ Wed, 22 Jul 2020 16:44:19: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:44:20: 25000000 INFO @ Wed, 22 Jul 2020 16:44:23: 20000000 INFO @ Wed, 22 Jul 2020 16:44:24: 32000000 INFO @ Wed, 22 Jul 2020 16:44:25: 26000000 INFO @ Wed, 22 Jul 2020 16:44:28: 21000000 INFO @ Wed, 22 Jul 2020 16:44:29: 33000000 INFO @ Wed, 22 Jul 2020 16:44:31: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:44:33: 22000000 INFO @ Wed, 22 Jul 2020 16:44:34: 34000000 INFO @ Wed, 22 Jul 2020 16:44:36: 28000000 INFO @ Wed, 22 Jul 2020 16:44:38: 23000000 INFO @ Wed, 22 Jul 2020 16:44:39: 35000000 INFO @ Wed, 22 Jul 2020 16:44:41: 29000000 INFO @ Wed, 22 Jul 2020 16:44:44: 24000000 INFO @ Wed, 22 Jul 2020 16:44:44: 36000000 INFO @ Wed, 22 Jul 2020 16:44:46: 30000000 INFO @ Wed, 22 Jul 2020 16:44:49: 25000000 INFO @ Wed, 22 Jul 2020 16:44:49: 37000000 INFO @ Wed, 22 Jul 2020 16:44:51: 31000000 INFO @ Wed, 22 Jul 2020 16:44:54: 26000000 INFO @ Wed, 22 Jul 2020 16:44:54: 38000000 INFO @ Wed, 22 Jul 2020 16:44:56: 32000000 INFO @ Wed, 22 Jul 2020 16:44:59: 27000000 INFO @ Wed, 22 Jul 2020 16:44:59: 39000000 INFO @ Wed, 22 Jul 2020 16:45:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:45:00: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:45:00: #1 total tags in treatment: 19086405 INFO @ Wed, 22 Jul 2020 16:45:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:45:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:45:00: #1 tags after filtering in treatment: 10295497 INFO @ Wed, 22 Jul 2020 16:45:00: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 16:45:00: #1 finished! INFO @ Wed, 22 Jul 2020 16:45:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:45:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:45:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:45:01: 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 Jul 2020 16:45:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.05_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/SRX8639581/SRX8639581.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:45:01: 33000000 INFO @ Wed, 22 Jul 2020 16:45:04: 28000000 INFO @ Wed, 22 Jul 2020 16:45:06: 34000000 INFO @ Wed, 22 Jul 2020 16:45:09: 29000000 INFO @ Wed, 22 Jul 2020 16:45:11: 35000000 INFO @ Wed, 22 Jul 2020 16:45:14: 30000000 INFO @ Wed, 22 Jul 2020 16:45:16: 36000000 INFO @ Wed, 22 Jul 2020 16:45:19: 31000000 INFO @ Wed, 22 Jul 2020 16:45:21: 37000000 INFO @ Wed, 22 Jul 2020 16:45:24: 32000000 INFO @ Wed, 22 Jul 2020 16:45:26: 38000000 INFO @ Wed, 22 Jul 2020 16:45:29: 33000000 INFO @ Wed, 22 Jul 2020 16:45:31: 39000000 INFO @ Wed, 22 Jul 2020 16:45:31: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:45:31: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:45:31: #1 total tags in treatment: 19086405 INFO @ Wed, 22 Jul 2020 16:45:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:45:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:45:31: #1 tags after filtering in treatment: 10295497 INFO @ Wed, 22 Jul 2020 16:45:31: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 16:45:31: #1 finished! INFO @ Wed, 22 Jul 2020 16:45:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:45:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:45:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:45:32: 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 Jul 2020 16:45:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.10_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/SRX8639581/SRX8639581.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:45:34: 34000000 INFO @ Wed, 22 Jul 2020 16:45:38: 35000000 INFO @ Wed, 22 Jul 2020 16:45:43: 36000000 INFO @ Wed, 22 Jul 2020 16:45:48: 37000000 INFO @ Wed, 22 Jul 2020 16:45:53: 38000000 INFO @ Wed, 22 Jul 2020 16:45:57: 39000000 INFO @ Wed, 22 Jul 2020 16:45:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:45:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:45:58: #1 total tags in treatment: 19086405 INFO @ Wed, 22 Jul 2020 16:45:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:45:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:45:58: #1 tags after filtering in treatment: 10295497 INFO @ Wed, 22 Jul 2020 16:45:58: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 16:45:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:45:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:45:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:45:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:45:59: 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 Jul 2020 16:45:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.20_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/SRX8639581/SRX8639581.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639581/SRX8639581.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling