Job ID = 7117538 SRX = SRX8639539 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:40:10 prefetch.2.10.7: 1) Downloading 'SRR12116977'... 2020-07-22T06:40:10 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:44:01 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:44:01 prefetch.2.10.7: 1) 'SRR12116977' was downloaded successfully 2020-07-22T06:44:01 prefetch.2.10.7: 'SRR12116977' has 0 unresolved dependencies Read 27056160 spots for SRR12116977/SRR12116977.sra Written 27056160 spots for SRR12116977/SRR12116977.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: 00:12:40 27056160 reads; of these: 27056160 (100.00%) were paired; of these: 5368950 (19.84%) aligned concordantly 0 times 19142465 (70.75%) aligned concordantly exactly 1 time 2544745 (9.41%) aligned concordantly >1 times ---- 5368950 pairs aligned concordantly 0 times; of these: 150688 (2.81%) aligned discordantly 1 time ---- 5218262 pairs aligned 0 times concordantly or discordantly; of these: 10436524 mates make up the pairs; of these: 10139189 (97.15%) aligned 0 times 218732 (2.10%) aligned exactly 1 time 78603 (0.75%) aligned >1 times 81.26% overall alignment rate Time searching: 00:12:40 Overall time: 00:12:40 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] 432137 / 21808686 = 0.0198 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 16:07:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.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 16:07:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:07:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:07:57: 1000000 INFO @ Wed, 22 Jul 2020 16:08:04: 2000000 INFO @ Wed, 22 Jul 2020 16:08:10: 3000000 INFO @ Wed, 22 Jul 2020 16:08:17: 4000000 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 16:08:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.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 16:08:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:08:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:08:24: 5000000 INFO @ Wed, 22 Jul 2020 16:08:27: 1000000 INFO @ Wed, 22 Jul 2020 16:08:32: 6000000 INFO @ Wed, 22 Jul 2020 16:08:34: 2000000 INFO @ Wed, 22 Jul 2020 16:08:39: 7000000 INFO @ Wed, 22 Jul 2020 16:08:40: 3000000 INFO @ Wed, 22 Jul 2020 16:08:46: 8000000 INFO @ Wed, 22 Jul 2020 16:08:46: 4000000 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 16:08:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.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 16:08:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:08:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:08:53: 5000000 INFO @ Wed, 22 Jul 2020 16:08:54: 9000000 INFO @ Wed, 22 Jul 2020 16:08:58: 1000000 INFO @ Wed, 22 Jul 2020 16:08:59: 6000000 INFO @ Wed, 22 Jul 2020 16:09:01: 10000000 INFO @ Wed, 22 Jul 2020 16:09:05: 2000000 INFO @ Wed, 22 Jul 2020 16:09:06: 7000000 INFO @ Wed, 22 Jul 2020 16:09:08: 11000000 INFO @ Wed, 22 Jul 2020 16:09:12: 8000000 INFO @ Wed, 22 Jul 2020 16:09:13: 3000000 INFO @ Wed, 22 Jul 2020 16:09:16: 12000000 INFO @ Wed, 22 Jul 2020 16:09:19: 9000000 INFO @ Wed, 22 Jul 2020 16:09:20: 4000000 INFO @ Wed, 22 Jul 2020 16:09:23: 13000000 INFO @ Wed, 22 Jul 2020 16:09:25: 10000000 INFO @ Wed, 22 Jul 2020 16:09:27: 5000000 INFO @ Wed, 22 Jul 2020 16:09:30: 14000000 INFO @ Wed, 22 Jul 2020 16:09:32: 11000000 INFO @ Wed, 22 Jul 2020 16:09:35: 6000000 INFO @ Wed, 22 Jul 2020 16:09:38: 15000000 INFO @ Wed, 22 Jul 2020 16:09:38: 12000000 INFO @ Wed, 22 Jul 2020 16:09:42: 7000000 INFO @ Wed, 22 Jul 2020 16:09:44: 13000000 INFO @ Wed, 22 Jul 2020 16:09:45: 16000000 INFO @ Wed, 22 Jul 2020 16:09:49: 8000000 INFO @ Wed, 22 Jul 2020 16:09:51: 14000000 INFO @ Wed, 22 Jul 2020 16:09:52: 17000000 INFO @ Wed, 22 Jul 2020 16:09:57: 9000000 INFO @ Wed, 22 Jul 2020 16:09:57: 15000000 INFO @ Wed, 22 Jul 2020 16:09:59: 18000000 INFO @ Wed, 22 Jul 2020 16:10:04: 16000000 INFO @ Wed, 22 Jul 2020 16:10:04: 10000000 INFO @ Wed, 22 Jul 2020 16:10:07: 19000000 INFO @ Wed, 22 Jul 2020 16:10:10: 17000000 INFO @ Wed, 22 Jul 2020 16:10:11: 11000000 INFO @ Wed, 22 Jul 2020 16:10:14: 20000000 INFO @ Wed, 22 Jul 2020 16:10:17: 18000000 INFO @ Wed, 22 Jul 2020 16:10:19: 12000000 INFO @ Wed, 22 Jul 2020 16:10:21: 21000000 INFO @ Wed, 22 Jul 2020 16:10:23: 19000000 INFO @ Wed, 22 Jul 2020 16:10:26: 13000000 INFO @ Wed, 22 Jul 2020 16:10:28: 22000000 INFO @ Wed, 22 Jul 2020 16:10:29: 20000000 INFO @ Wed, 22 Jul 2020 16:10:33: 14000000 INFO @ Wed, 22 Jul 2020 16:10:35: 23000000 INFO @ Wed, 22 Jul 2020 16:10:35: 21000000 INFO @ Wed, 22 Jul 2020 16:10:40: 15000000 INFO @ Wed, 22 Jul 2020 16:10:42: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:10:43: 24000000 INFO @ Wed, 22 Jul 2020 16:10:47: 16000000 INFO @ Wed, 22 Jul 2020 16:10:48: 23000000 INFO @ Wed, 22 Jul 2020 16:10:50: 25000000 INFO @ Wed, 22 Jul 2020 16:10:54: 17000000 INFO @ Wed, 22 Jul 2020 16:10:54: 24000000 INFO @ Wed, 22 Jul 2020 16:10:57: 26000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:11:01: 18000000 INFO @ Wed, 22 Jul 2020 16:11:01: 25000000 INFO @ Wed, 22 Jul 2020 16:11:04: 27000000 INFO @ Wed, 22 Jul 2020 16:11:07: 26000000 INFO @ Wed, 22 Jul 2020 16:11:08: 19000000 INFO @ Wed, 22 Jul 2020 16:11:11: 28000000 INFO @ Wed, 22 Jul 2020 16:11:13: 27000000 INFO @ Wed, 22 Jul 2020 16:11:15: 20000000 INFO @ Wed, 22 Jul 2020 16:11:19: 29000000 INFO @ Wed, 22 Jul 2020 16:11:20: 28000000 INFO @ Wed, 22 Jul 2020 16:11:22: 21000000 INFO @ Wed, 22 Jul 2020 16:11:26: 30000000 INFO @ Wed, 22 Jul 2020 16:11:26: 29000000 INFO @ Wed, 22 Jul 2020 16:11:29: 22000000 INFO @ Wed, 22 Jul 2020 16:11:32: 30000000 INFO @ Wed, 22 Jul 2020 16:11:33: 31000000 INFO @ Wed, 22 Jul 2020 16:11:36: 23000000 INFO @ Wed, 22 Jul 2020 16:11:38: 31000000 INFO @ Wed, 22 Jul 2020 16:11:40: 32000000 INFO @ Wed, 22 Jul 2020 16:11:43: 24000000 INFO @ Wed, 22 Jul 2020 16:11:44: 32000000 INFO @ Wed, 22 Jul 2020 16:11:47: 33000000 INFO @ Wed, 22 Jul 2020 16:11:50: 25000000 INFO @ Wed, 22 Jul 2020 16:11:50: 33000000 INFO @ Wed, 22 Jul 2020 16:11:54: 34000000 INFO @ Wed, 22 Jul 2020 16:11:56: 34000000 INFO @ Wed, 22 Jul 2020 16:11:57: 26000000 INFO @ Wed, 22 Jul 2020 16:12:00: 35000000 INFO @ Wed, 22 Jul 2020 16:12:03: 35000000 INFO @ Wed, 22 Jul 2020 16:12:04: 27000000 INFO @ Wed, 22 Jul 2020 16:12:07: 36000000 INFO @ Wed, 22 Jul 2020 16:12:09: 36000000 INFO @ Wed, 22 Jul 2020 16:12:12: 28000000 INFO @ Wed, 22 Jul 2020 16:12:14: 37000000 INFO @ Wed, 22 Jul 2020 16:12:15: 37000000 INFO @ Wed, 22 Jul 2020 16:12:19: 29000000 INFO @ Wed, 22 Jul 2020 16:12:21: 38000000 INFO @ Wed, 22 Jul 2020 16:12:22: 38000000 INFO @ Wed, 22 Jul 2020 16:12:26: 30000000 INFO @ Wed, 22 Jul 2020 16:12:28: 39000000 INFO @ Wed, 22 Jul 2020 16:12:29: 39000000 INFO @ Wed, 22 Jul 2020 16:12:33: 31000000 INFO @ Wed, 22 Jul 2020 16:12:35: 40000000 INFO @ Wed, 22 Jul 2020 16:12:36: 40000000 INFO @ Wed, 22 Jul 2020 16:12:41: 32000000 INFO @ Wed, 22 Jul 2020 16:12:42: 41000000 INFO @ Wed, 22 Jul 2020 16:12:43: 41000000 INFO @ Wed, 22 Jul 2020 16:12:48: 33000000 INFO @ Wed, 22 Jul 2020 16:12:49: 42000000 INFO @ Wed, 22 Jul 2020 16:12:50: 42000000 INFO @ Wed, 22 Jul 2020 16:12:55: 34000000 INFO @ Wed, 22 Jul 2020 16:12:56: 43000000 INFO @ Wed, 22 Jul 2020 16:12:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:12:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:12:57: #1 total tags in treatment: 21255216 INFO @ Wed, 22 Jul 2020 16:12:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:12:57: #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 16:12:57: 43000000 INFO @ Wed, 22 Jul 2020 16:12:57: #1 tags after filtering in treatment: 13193275 INFO @ Wed, 22 Jul 2020 16:12:57: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 16:12:57: #1 finished! INFO @ Wed, 22 Jul 2020 16:12:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:12:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:12:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:12:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:12:58: #1 total tags in treatment: 21255216 INFO @ Wed, 22 Jul 2020 16:12:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:12:58: #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 16:12:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:12:58: 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 16:12:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.05_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/SRX8639539/SRX8639539.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:12:58: #1 tags after filtering in treatment: 13193275 INFO @ Wed, 22 Jul 2020 16:12:58: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 16:12:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:12:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:12:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:12:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:12:59: 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 16:12:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.10_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/SRX8639539/SRX8639539.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:13:02: 35000000 INFO @ Wed, 22 Jul 2020 16:13:09: 36000000 INFO @ Wed, 22 Jul 2020 16:13:15: 37000000 INFO @ Wed, 22 Jul 2020 16:13:22: 38000000 INFO @ Wed, 22 Jul 2020 16:13:28: 39000000 INFO @ Wed, 22 Jul 2020 16:13:35: 40000000 INFO @ Wed, 22 Jul 2020 16:13:41: 41000000 INFO @ Wed, 22 Jul 2020 16:13:48: 42000000 INFO @ Wed, 22 Jul 2020 16:13:54: 43000000 INFO @ Wed, 22 Jul 2020 16:13:55: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:13:55: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:13:55: #1 total tags in treatment: 21255216 INFO @ Wed, 22 Jul 2020 16:13:55: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:13:55: #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 16:13:55: #1 tags after filtering in treatment: 13193275 INFO @ Wed, 22 Jul 2020 16:13:55: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 16:13:55: #1 finished! INFO @ Wed, 22 Jul 2020 16:13:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:13:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:13:56: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:13:56: 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 16:13:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.20_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/SRX8639539/SRX8639539.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639539/SRX8639539.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling