Job ID = 7117482 SRX = SRX8639536 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:39:40 prefetch.2.10.7: 1) Downloading 'SRR12116974'... 2020-07-22T06:39:40 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:42:32 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:42:32 prefetch.2.10.7: 1) 'SRR12116974' was downloaded successfully 2020-07-22T06:42:32 prefetch.2.10.7: 'SRR12116974' has 0 unresolved dependencies Read 22502991 spots for SRR12116974/SRR12116974.sra Written 22502991 spots for SRR12116974/SRR12116974.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: 00:11:55 22502991 reads; of these: 22502991 (100.00%) were paired; of these: 4211878 (18.72%) aligned concordantly 0 times 16083539 (71.47%) aligned concordantly exactly 1 time 2207574 (9.81%) aligned concordantly >1 times ---- 4211878 pairs aligned concordantly 0 times; of these: 577057 (13.70%) aligned discordantly 1 time ---- 3634821 pairs aligned 0 times concordantly or discordantly; of these: 7269642 mates make up the pairs; of these: 6834059 (94.01%) aligned 0 times 208387 (2.87%) aligned exactly 1 time 227196 (3.13%) aligned >1 times 84.82% overall alignment rate Time searching: 00:11:55 Overall time: 00:11:55 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 16 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] 329785 / 18776624 = 0.0176 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 16:04:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.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 16:04:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:04:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:04:32: 1000000 INFO @ Wed, 22 Jul 2020 16:04:37: 2000000 INFO @ Wed, 22 Jul 2020 16:04:43: 3000000 INFO @ Wed, 22 Jul 2020 16:04:49: 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 16:04:55: 5000000 INFO @ Wed, 22 Jul 2020 16:04:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.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 16:04:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:04:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:01: 6000000 INFO @ Wed, 22 Jul 2020 16:05:02: 1000000 INFO @ Wed, 22 Jul 2020 16:05:07: 7000000 INFO @ Wed, 22 Jul 2020 16:05:08: 2000000 INFO @ Wed, 22 Jul 2020 16:05:13: 8000000 INFO @ Wed, 22 Jul 2020 16:05:14: 3000000 INFO @ Wed, 22 Jul 2020 16:05:19: 9000000 INFO @ Wed, 22 Jul 2020 16:05:20: 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 16:05:25: 10000000 INFO @ Wed, 22 Jul 2020 16:05:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.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 16:05:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:26: 5000000 INFO @ Wed, 22 Jul 2020 16:05:31: 11000000 INFO @ Wed, 22 Jul 2020 16:05:32: 6000000 INFO @ Wed, 22 Jul 2020 16:05:32: 1000000 INFO @ Wed, 22 Jul 2020 16:05:38: 12000000 INFO @ Wed, 22 Jul 2020 16:05:38: 7000000 INFO @ Wed, 22 Jul 2020 16:05:39: 2000000 INFO @ Wed, 22 Jul 2020 16:05:44: 13000000 INFO @ Wed, 22 Jul 2020 16:05:44: 8000000 INFO @ Wed, 22 Jul 2020 16:05:45: 3000000 INFO @ Wed, 22 Jul 2020 16:05:50: 14000000 INFO @ Wed, 22 Jul 2020 16:05:51: 9000000 INFO @ Wed, 22 Jul 2020 16:05:52: 4000000 INFO @ Wed, 22 Jul 2020 16:05:56: 15000000 INFO @ Wed, 22 Jul 2020 16:05:57: 10000000 INFO @ Wed, 22 Jul 2020 16:05:58: 5000000 INFO @ Wed, 22 Jul 2020 16:06:02: 16000000 INFO @ Wed, 22 Jul 2020 16:06:03: 11000000 INFO @ Wed, 22 Jul 2020 16:06:04: 6000000 INFO @ Wed, 22 Jul 2020 16:06:08: 17000000 INFO @ Wed, 22 Jul 2020 16:06:09: 12000000 INFO @ Wed, 22 Jul 2020 16:06:11: 7000000 INFO @ Wed, 22 Jul 2020 16:06:15: 18000000 INFO @ Wed, 22 Jul 2020 16:06:15: 13000000 INFO @ Wed, 22 Jul 2020 16:06:17: 8000000 INFO @ Wed, 22 Jul 2020 16:06:21: 14000000 INFO @ Wed, 22 Jul 2020 16:06:22: 19000000 INFO @ Wed, 22 Jul 2020 16:06:24: 9000000 INFO @ Wed, 22 Jul 2020 16:06:28: 15000000 INFO @ Wed, 22 Jul 2020 16:06:29: 20000000 INFO @ Wed, 22 Jul 2020 16:06:30: 10000000 INFO @ Wed, 22 Jul 2020 16:06:34: 16000000 INFO @ Wed, 22 Jul 2020 16:06:35: 21000000 INFO @ Wed, 22 Jul 2020 16:06:37: 11000000 INFO @ Wed, 22 Jul 2020 16:06:40: 17000000 INFO @ Wed, 22 Jul 2020 16:06:42: 22000000 INFO @ Wed, 22 Jul 2020 16:06:43: 12000000 INFO @ Wed, 22 Jul 2020 16:06:46: 18000000 INFO @ Wed, 22 Jul 2020 16:06:49: 23000000 INFO @ Wed, 22 Jul 2020 16:06:49: 13000000 INFO @ Wed, 22 Jul 2020 16:06:53: 19000000 INFO @ Wed, 22 Jul 2020 16:06:56: 14000000 INFO @ Wed, 22 Jul 2020 16:06:56: 24000000 INFO @ Wed, 22 Jul 2020 16:06:59: 20000000 INFO @ Wed, 22 Jul 2020 16:07:02: 15000000 INFO @ Wed, 22 Jul 2020 16:07:03: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:07:06: 21000000 INFO @ Wed, 22 Jul 2020 16:07:09: 16000000 INFO @ Wed, 22 Jul 2020 16:07:09: 26000000 INFO @ Wed, 22 Jul 2020 16:07:12: 22000000 INFO @ Wed, 22 Jul 2020 16:07:16: 17000000 INFO @ Wed, 22 Jul 2020 16:07:16: 27000000 INFO @ Wed, 22 Jul 2020 16:07:19: 23000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:07:22: 18000000 INFO @ Wed, 22 Jul 2020 16:07:23: 28000000 INFO @ Wed, 22 Jul 2020 16:07:26: 24000000 INFO @ Wed, 22 Jul 2020 16:07:29: 19000000 INFO @ Wed, 22 Jul 2020 16:07:30: 29000000 INFO @ Wed, 22 Jul 2020 16:07:33: 25000000 INFO @ Wed, 22 Jul 2020 16:07:36: 20000000 INFO @ Wed, 22 Jul 2020 16:07:37: 30000000 INFO @ Wed, 22 Jul 2020 16:07:39: 26000000 INFO @ Wed, 22 Jul 2020 16:07:43: 21000000 INFO @ Wed, 22 Jul 2020 16:07:44: 31000000 INFO @ Wed, 22 Jul 2020 16:07:46: 27000000 INFO @ Wed, 22 Jul 2020 16:07:50: 22000000 INFO @ Wed, 22 Jul 2020 16:07:51: 32000000 INFO @ Wed, 22 Jul 2020 16:07:53: 28000000 INFO @ Wed, 22 Jul 2020 16:07:57: 23000000 INFO @ Wed, 22 Jul 2020 16:07:58: 33000000 INFO @ Wed, 22 Jul 2020 16:08:00: 29000000 INFO @ Wed, 22 Jul 2020 16:08:04: 24000000 INFO @ Wed, 22 Jul 2020 16:08:04: 34000000 INFO @ Wed, 22 Jul 2020 16:08:06: 30000000 INFO @ Wed, 22 Jul 2020 16:08:11: 35000000 INFO @ Wed, 22 Jul 2020 16:08:11: 25000000 INFO @ Wed, 22 Jul 2020 16:08:13: 31000000 INFO @ Wed, 22 Jul 2020 16:08:18: 36000000 INFO @ Wed, 22 Jul 2020 16:08:18: 26000000 INFO @ Wed, 22 Jul 2020 16:08:20: 32000000 INFO @ Wed, 22 Jul 2020 16:08:24: 37000000 INFO @ Wed, 22 Jul 2020 16:08:25: 27000000 INFO @ Wed, 22 Jul 2020 16:08:27: 33000000 INFO @ Wed, 22 Jul 2020 16:08:28: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:28: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:28: #1 total tags in treatment: 17964450 INFO @ Wed, 22 Jul 2020 16:08:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:28: #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 16:08:28: #1 tags after filtering in treatment: 11822517 INFO @ Wed, 22 Jul 2020 16:08:28: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:08:28: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:29: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:29: 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 16:08:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.05_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/SRX8639536/SRX8639536.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:08:32: 28000000 INFO @ Wed, 22 Jul 2020 16:08:34: 34000000 INFO @ Wed, 22 Jul 2020 16:08:39: 29000000 INFO @ Wed, 22 Jul 2020 16:08:40: 35000000 INFO @ Wed, 22 Jul 2020 16:08:46: 30000000 INFO @ Wed, 22 Jul 2020 16:08:47: 36000000 INFO @ Wed, 22 Jul 2020 16:08:53: 31000000 INFO @ Wed, 22 Jul 2020 16:08:53: 37000000 INFO @ Wed, 22 Jul 2020 16:08:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:08:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:08:57: #1 total tags in treatment: 17964450 INFO @ Wed, 22 Jul 2020 16:08:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:08:57: #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 16:08:57: #1 tags after filtering in treatment: 11822517 INFO @ Wed, 22 Jul 2020 16:08:57: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:08:57: #1 finished! INFO @ Wed, 22 Jul 2020 16:08:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:08:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:08:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:08:58: 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 16:08:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.10_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/SRX8639536/SRX8639536.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:00: 32000000 INFO @ Wed, 22 Jul 2020 16:09:06: 33000000 INFO @ Wed, 22 Jul 2020 16:09:13: 34000000 INFO @ Wed, 22 Jul 2020 16:09:19: 35000000 INFO @ Wed, 22 Jul 2020 16:09:25: 36000000 INFO @ Wed, 22 Jul 2020 16:09:32: 37000000 INFO @ Wed, 22 Jul 2020 16:09:35: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:35: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:35: #1 total tags in treatment: 17964450 INFO @ Wed, 22 Jul 2020 16:09:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:35: #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 16:09:35: #1 tags after filtering in treatment: 11822517 INFO @ Wed, 22 Jul 2020 16:09:35: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 16:09:35: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:36: 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 16:09:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639536/SRX8639536.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling