Job ID = 6528371 SRX = SRX5431053 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:53:10 prefetch.2.10.7: 1) Downloading 'SRR8632352'... 2020-06-29T14:53:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:55:35 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:55:35 prefetch.2.10.7: 1) 'SRR8632352' was downloaded successfully Read 15675042 spots for SRR8632352/SRR8632352.sra Written 15675042 spots for SRR8632352/SRR8632352.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: 00:32:56 15675042 reads; of these: 15675042 (100.00%) were paired; of these: 1657141 (10.57%) aligned concordantly 0 times 9879932 (63.03%) aligned concordantly exactly 1 time 4137969 (26.40%) aligned concordantly >1 times ---- 1657141 pairs aligned concordantly 0 times; of these: 73338 (4.43%) aligned discordantly 1 time ---- 1583803 pairs aligned 0 times concordantly or discordantly; of these: 3167606 mates make up the pairs; of these: 2428945 (76.68%) aligned 0 times 412063 (13.01%) aligned exactly 1 time 326598 (10.31%) aligned >1 times 92.25% overall alignment rate Time searching: 00:32:56 Overall time: 00:32:56 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1235791 / 14052957 = 0.0879 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 @ Tue, 30 Jun 2020 00:45:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:45:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:45:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:45:17: 1000000 INFO @ Tue, 30 Jun 2020 00:45:22: 2000000 INFO @ Tue, 30 Jun 2020 00:45:28: 3000000 INFO @ Tue, 30 Jun 2020 00:45:33: 4000000 INFO @ Tue, 30 Jun 2020 00:45:38: 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 @ Tue, 30 Jun 2020 00:45:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:45:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:45:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:45:43: 6000000 INFO @ Tue, 30 Jun 2020 00:45:47: 1000000 INFO @ Tue, 30 Jun 2020 00:45:48: 7000000 INFO @ Tue, 30 Jun 2020 00:45:53: 2000000 INFO @ Tue, 30 Jun 2020 00:45:53: 8000000 INFO @ Tue, 30 Jun 2020 00:45:58: 3000000 INFO @ Tue, 30 Jun 2020 00:45:59: 9000000 INFO @ Tue, 30 Jun 2020 00:46:03: 4000000 INFO @ Tue, 30 Jun 2020 00:46:04: 10000000 INFO @ Tue, 30 Jun 2020 00:46:09: 5000000 INFO @ Tue, 30 Jun 2020 00:46:09: 11000000 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 @ Tue, 30 Jun 2020 00:46:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:46:13: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:46:13: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:46:14: 6000000 INFO @ Tue, 30 Jun 2020 00:46:15: 12000000 INFO @ Tue, 30 Jun 2020 00:46:18: 1000000 INFO @ Tue, 30 Jun 2020 00:46:19: 7000000 INFO @ Tue, 30 Jun 2020 00:46:20: 13000000 INFO @ Tue, 30 Jun 2020 00:46:23: 2000000 INFO @ Tue, 30 Jun 2020 00:46:25: 8000000 INFO @ Tue, 30 Jun 2020 00:46:25: 14000000 INFO @ Tue, 30 Jun 2020 00:46:29: 3000000 INFO @ Tue, 30 Jun 2020 00:46:30: 9000000 INFO @ Tue, 30 Jun 2020 00:46:31: 15000000 INFO @ Tue, 30 Jun 2020 00:46:34: 4000000 INFO @ Tue, 30 Jun 2020 00:46:35: 10000000 INFO @ Tue, 30 Jun 2020 00:46:36: 16000000 INFO @ Tue, 30 Jun 2020 00:46:39: 5000000 INFO @ Tue, 30 Jun 2020 00:46:41: 11000000 INFO @ Tue, 30 Jun 2020 00:46:41: 17000000 INFO @ Tue, 30 Jun 2020 00:46:45: 6000000 INFO @ Tue, 30 Jun 2020 00:46:46: 12000000 INFO @ Tue, 30 Jun 2020 00:46:47: 18000000 INFO @ Tue, 30 Jun 2020 00:46:50: 7000000 INFO @ Tue, 30 Jun 2020 00:46:51: 13000000 INFO @ Tue, 30 Jun 2020 00:46:52: 19000000 INFO @ Tue, 30 Jun 2020 00:46:55: 8000000 INFO @ Tue, 30 Jun 2020 00:46:57: 14000000 INFO @ Tue, 30 Jun 2020 00:46:57: 20000000 INFO @ Tue, 30 Jun 2020 00:47:01: 9000000 INFO @ Tue, 30 Jun 2020 00:47:02: 15000000 INFO @ Tue, 30 Jun 2020 00:47:02: 21000000 INFO @ Tue, 30 Jun 2020 00:47:06: 10000000 INFO @ Tue, 30 Jun 2020 00:47:07: 16000000 INFO @ Tue, 30 Jun 2020 00:47:08: 22000000 INFO @ Tue, 30 Jun 2020 00:47:11: 11000000 INFO @ Tue, 30 Jun 2020 00:47:12: 17000000 INFO @ Tue, 30 Jun 2020 00:47:13: 23000000 INFO @ Tue, 30 Jun 2020 00:47:16: 12000000 INFO @ Tue, 30 Jun 2020 00:47:17: 18000000 INFO @ Tue, 30 Jun 2020 00:47:18: 24000000 INFO @ Tue, 30 Jun 2020 00:47:21: 13000000 INFO @ Tue, 30 Jun 2020 00:47:22: 19000000 INFO @ Tue, 30 Jun 2020 00:47:23: 25000000 INFO @ Tue, 30 Jun 2020 00:47:26: 14000000 INFO @ Tue, 30 Jun 2020 00:47:27: 20000000 INFO @ Tue, 30 Jun 2020 00:47:28: 26000000 INFO @ Tue, 30 Jun 2020 00:47:30: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:47:30: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:47:30: #1 total tags in treatment: 12783301 INFO @ Tue, 30 Jun 2020 00:47:30: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:47:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:47:31: #1 tags after filtering in treatment: 11323738 INFO @ Tue, 30 Jun 2020 00:47:31: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:47:31: #1 finished! INFO @ Tue, 30 Jun 2020 00:47:31: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:47:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:47:31: #2 number of paired peaks: 32 WARNING @ Tue, 30 Jun 2020 00:47:31: Too few paired peaks (32) 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 @ Tue, 30 Jun 2020 00:47:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.05_peaks.narrowPeak: No such file or directory INFO @ Tue, 30 Jun 2020 00:47:31: 15000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:47:33: 21000000 INFO @ Tue, 30 Jun 2020 00:47:37: 16000000 INFO @ Tue, 30 Jun 2020 00:47:38: 22000000 INFO @ Tue, 30 Jun 2020 00:47:42: 17000000 INFO @ Tue, 30 Jun 2020 00:47:43: 23000000 INFO @ Tue, 30 Jun 2020 00:47:47: 18000000 INFO @ Tue, 30 Jun 2020 00:47:48: 24000000 INFO @ Tue, 30 Jun 2020 00:47:52: 19000000 INFO @ Tue, 30 Jun 2020 00:47:53: 25000000 INFO @ Tue, 30 Jun 2020 00:47:57: 20000000 INFO @ Tue, 30 Jun 2020 00:47:58: 26000000 INFO @ Tue, 30 Jun 2020 00:48:00: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:48:00: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:48:00: #1 total tags in treatment: 12783301 INFO @ Tue, 30 Jun 2020 00:48:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:48:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:48:00: #1 tags after filtering in treatment: 11323738 INFO @ Tue, 30 Jun 2020 00:48:00: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:48:00: #1 finished! INFO @ Tue, 30 Jun 2020 00:48:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:48:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:48:01: #2 number of paired peaks: 32 WARNING @ Tue, 30 Jun 2020 00:48:01: Too few paired peaks (32) 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 @ Tue, 30 Jun 2020 00:48:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.10_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/dm3/SRX5431053/SRX5431053.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:48:02: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:48:07: 22000000 INFO @ Tue, 30 Jun 2020 00:48:12: 23000000 INFO @ Tue, 30 Jun 2020 00:48:17: 24000000 INFO @ Tue, 30 Jun 2020 00:48:22: 25000000 INFO @ Tue, 30 Jun 2020 00:48:27: 26000000 INFO @ Tue, 30 Jun 2020 00:48:30: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:48:30: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:48:30: #1 total tags in treatment: 12783301 INFO @ Tue, 30 Jun 2020 00:48:30: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:48:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:48:30: #1 tags after filtering in treatment: 11323738 INFO @ Tue, 30 Jun 2020 00:48:30: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:48:30: #1 finished! INFO @ Tue, 30 Jun 2020 00:48:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:48:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:48:31: #2 number of paired peaks: 32 WARNING @ Tue, 30 Jun 2020 00:48:31: Too few paired peaks (32) 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 @ Tue, 30 Jun 2020 00:48:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.20_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/dm3/SRX5431053/SRX5431053.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431053/SRX5431053.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。