Job ID = 6528372 SRX = SRX5431054 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T15:04:54 prefetch.2.10.7: 1) Downloading 'SRR8632353'... 2020-06-29T15:04:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:07:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:07:26 prefetch.2.10.7: 1) 'SRR8632353' was downloaded successfully Read 20014768 spots for SRR8632353/SRR8632353.sra Written 20014768 spots for SRR8632353/SRR8632353.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: 00:40:21 20014768 reads; of these: 20014768 (100.00%) were paired; of these: 2900767 (14.49%) aligned concordantly 0 times 11762943 (58.77%) aligned concordantly exactly 1 time 5351058 (26.74%) aligned concordantly >1 times ---- 2900767 pairs aligned concordantly 0 times; of these: 307372 (10.60%) aligned discordantly 1 time ---- 2593395 pairs aligned 0 times concordantly or discordantly; of these: 5186790 mates make up the pairs; of these: 4321249 (83.31%) aligned 0 times 439177 (8.47%) aligned exactly 1 time 426364 (8.22%) aligned >1 times 89.20% overall alignment rate Time searching: 00:40:21 Overall time: 00:40:21 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 16 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] 1284003 / 17359485 = 0.0740 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 01:08:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.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 01:08:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:08:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:08:56: 1000000 INFO @ Tue, 30 Jun 2020 01:09:01: 2000000 INFO @ Tue, 30 Jun 2020 01:09:07: 3000000 INFO @ Tue, 30 Jun 2020 01:09:13: 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 @ Tue, 30 Jun 2020 01:09:19: 5000000 INFO @ Tue, 30 Jun 2020 01:09:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.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 01:09:20: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:09:20: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:09:25: 6000000 INFO @ Tue, 30 Jun 2020 01:09:26: 1000000 INFO @ Tue, 30 Jun 2020 01:09:31: 7000000 INFO @ Tue, 30 Jun 2020 01:09:33: 2000000 INFO @ Tue, 30 Jun 2020 01:09:37: 8000000 INFO @ Tue, 30 Jun 2020 01:09:39: 3000000 INFO @ Tue, 30 Jun 2020 01:09:42: 9000000 INFO @ Tue, 30 Jun 2020 01:09:45: 4000000 INFO @ Tue, 30 Jun 2020 01:09:48: 10000000 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 01:09:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.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 01:09:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:09:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:09:52: 5000000 INFO @ Tue, 30 Jun 2020 01:09:53: 11000000 INFO @ Tue, 30 Jun 2020 01:09:56: 1000000 INFO @ Tue, 30 Jun 2020 01:09:58: 6000000 INFO @ Tue, 30 Jun 2020 01:09:59: 12000000 INFO @ Tue, 30 Jun 2020 01:10:02: 2000000 INFO @ Tue, 30 Jun 2020 01:10:04: 13000000 INFO @ Tue, 30 Jun 2020 01:10:05: 7000000 INFO @ Tue, 30 Jun 2020 01:10:07: 3000000 INFO @ Tue, 30 Jun 2020 01:10:10: 14000000 INFO @ Tue, 30 Jun 2020 01:10:11: 8000000 INFO @ Tue, 30 Jun 2020 01:10:13: 4000000 INFO @ Tue, 30 Jun 2020 01:10:16: 15000000 INFO @ Tue, 30 Jun 2020 01:10:17: 9000000 INFO @ Tue, 30 Jun 2020 01:10:19: 5000000 INFO @ Tue, 30 Jun 2020 01:10:21: 16000000 INFO @ Tue, 30 Jun 2020 01:10:22: 10000000 INFO @ Tue, 30 Jun 2020 01:10:24: 6000000 INFO @ Tue, 30 Jun 2020 01:10:27: 17000000 INFO @ Tue, 30 Jun 2020 01:10:28: 11000000 INFO @ Tue, 30 Jun 2020 01:10:30: 7000000 INFO @ Tue, 30 Jun 2020 01:10:32: 18000000 INFO @ Tue, 30 Jun 2020 01:10:34: 12000000 INFO @ Tue, 30 Jun 2020 01:10:36: 8000000 INFO @ Tue, 30 Jun 2020 01:10:38: 19000000 INFO @ Tue, 30 Jun 2020 01:10:40: 13000000 INFO @ Tue, 30 Jun 2020 01:10:42: 9000000 INFO @ Tue, 30 Jun 2020 01:10:44: 20000000 INFO @ Tue, 30 Jun 2020 01:10:46: 14000000 INFO @ Tue, 30 Jun 2020 01:10:48: 10000000 INFO @ Tue, 30 Jun 2020 01:10:50: 21000000 INFO @ Tue, 30 Jun 2020 01:10:51: 15000000 INFO @ Tue, 30 Jun 2020 01:10:55: 11000000 INFO @ Tue, 30 Jun 2020 01:10:56: 22000000 INFO @ Tue, 30 Jun 2020 01:10:57: 16000000 INFO @ Tue, 30 Jun 2020 01:11:01: 12000000 INFO @ Tue, 30 Jun 2020 01:11:01: 23000000 INFO @ Tue, 30 Jun 2020 01:11:03: 17000000 INFO @ Tue, 30 Jun 2020 01:11:07: 13000000 INFO @ Tue, 30 Jun 2020 01:11:07: 24000000 INFO @ Tue, 30 Jun 2020 01:11:09: 18000000 INFO @ Tue, 30 Jun 2020 01:11:13: 14000000 INFO @ Tue, 30 Jun 2020 01:11:13: 25000000 INFO @ Tue, 30 Jun 2020 01:11:15: 19000000 INFO @ Tue, 30 Jun 2020 01:11:19: 26000000 INFO @ Tue, 30 Jun 2020 01:11:19: 15000000 INFO @ Tue, 30 Jun 2020 01:11:20: 20000000 INFO @ Tue, 30 Jun 2020 01:11:24: 27000000 INFO @ Tue, 30 Jun 2020 01:11:25: 16000000 INFO @ Tue, 30 Jun 2020 01:11:26: 21000000 INFO @ Tue, 30 Jun 2020 01:11:30: 28000000 INFO @ Tue, 30 Jun 2020 01:11:32: 17000000 INFO @ Tue, 30 Jun 2020 01:11:32: 22000000 INFO @ Tue, 30 Jun 2020 01:11:36: 29000000 INFO @ Tue, 30 Jun 2020 01:11:38: 18000000 INFO @ Tue, 30 Jun 2020 01:11:38: 23000000 INFO @ Tue, 30 Jun 2020 01:11:41: 30000000 INFO @ Tue, 30 Jun 2020 01:11:44: 19000000 INFO @ Tue, 30 Jun 2020 01:11:44: 24000000 INFO @ Tue, 30 Jun 2020 01:11:47: 31000000 INFO @ Tue, 30 Jun 2020 01:11:50: 20000000 INFO @ Tue, 30 Jun 2020 01:11:51: 25000000 INFO @ Tue, 30 Jun 2020 01:11:53: 32000000 INFO @ Tue, 30 Jun 2020 01:11:57: 26000000 INFO @ Tue, 30 Jun 2020 01:11:57: 21000000 INFO @ Tue, 30 Jun 2020 01:11:58: 33000000 INFO @ Tue, 30 Jun 2020 01:11:59: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:11:59: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:11:59: #1 total tags in treatment: 15837733 INFO @ Tue, 30 Jun 2020 01:11:59: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:11:59: #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 01:12:00: #1 tags after filtering in treatment: 13814746 INFO @ Tue, 30 Jun 2020 01:12:00: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 01:12:00: #1 finished! INFO @ Tue, 30 Jun 2020 01:12:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:12:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:12:01: #2 number of paired peaks: 22 WARNING @ Tue, 30 Jun 2020 01:12:01: Too few paired peaks (22) 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 01:12:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.05_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/dm3/SRX5431054/SRX5431054.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:12:02: 27000000 INFO @ Tue, 30 Jun 2020 01:12:03: 22000000 INFO @ Tue, 30 Jun 2020 01:12:09: 28000000 INFO @ Tue, 30 Jun 2020 01:12:09: 23000000 INFO @ Tue, 30 Jun 2020 01:12:15: 29000000 INFO @ Tue, 30 Jun 2020 01:12:15: 24000000 INFO @ Tue, 30 Jun 2020 01:12:21: 30000000 INFO @ Tue, 30 Jun 2020 01:12:22: 25000000 INFO @ Tue, 30 Jun 2020 01:12:27: 31000000 INFO @ Tue, 30 Jun 2020 01:12:28: 26000000 INFO @ Tue, 30 Jun 2020 01:12:32: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:12:34: 27000000 INFO @ Tue, 30 Jun 2020 01:12:38: 33000000 INFO @ Tue, 30 Jun 2020 01:12:39: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:12:39: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:12:39: #1 total tags in treatment: 15837733 INFO @ Tue, 30 Jun 2020 01:12:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:12:39: #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 01:12:39: #1 tags after filtering in treatment: 13814746 INFO @ Tue, 30 Jun 2020 01:12:39: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 01:12:39: #1 finished! INFO @ Tue, 30 Jun 2020 01:12:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:12:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:12:40: 28000000 INFO @ Tue, 30 Jun 2020 01:12:40: #2 number of paired peaks: 22 WARNING @ Tue, 30 Jun 2020 01:12:40: Too few paired peaks (22) 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 01:12:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.10_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/SRX5431054/SRX5431054.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:12:46: 29000000 INFO @ Tue, 30 Jun 2020 01:12:52: 30000000 INFO @ Tue, 30 Jun 2020 01:12:58: 31000000 INFO @ Tue, 30 Jun 2020 01:13:04: 32000000 INFO @ Tue, 30 Jun 2020 01:13:10: 33000000 INFO @ Tue, 30 Jun 2020 01:13:11: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:13:11: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:13:11: #1 total tags in treatment: 15837733 INFO @ Tue, 30 Jun 2020 01:13:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:13:11: #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 01:13:11: #1 tags after filtering in treatment: 13814746 INFO @ Tue, 30 Jun 2020 01:13:11: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 01:13:11: #1 finished! INFO @ Tue, 30 Jun 2020 01:13:11: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:13:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:13:12: #2 number of paired peaks: 22 WARNING @ Tue, 30 Jun 2020 01:13:12: Too few paired peaks (22) 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 01:13:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.20_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/dm3/SRX5431054/SRX5431054.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431054/SRX5431054.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。