Job ID = 6527506 SRX = SRX041386 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:52:25 prefetch.2.10.7: 1) Downloading 'SRR099115'... 2020-06-29T12:52:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:54:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:54:10 prefetch.2.10.7: 'SRR099115' is valid 2020-06-29T12:54:10 prefetch.2.10.7: 1) 'SRR099115' was downloaded successfully Read 23964715 spots for SRR099115/SRR099115.sra Written 23964715 spots for SRR099115/SRR099115.sra 2020-06-29T12:55:22 prefetch.2.10.7: 1) Downloading 'SRR099116'... 2020-06-29T12:55:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:47 prefetch.2.10.7: 'SRR099116' is valid 2020-06-29T12:56:47 prefetch.2.10.7: 1) 'SRR099116' was downloaded successfully Read 19155076 spots for SRR099116/SRR099116.sra Written 19155076 spots for SRR099116/SRR099116.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: 00:11:37 43119791 reads; of these: 43119791 (100.00%) were unpaired; of these: 632486 (1.47%) aligned 0 times 34634394 (80.32%) aligned exactly 1 time 7852911 (18.21%) aligned >1 times 98.53% overall alignment rate Time searching: 00:11:37 Overall time: 00:11:37 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_rmdupse_core] 17128837 / 42487305 = 0.4032 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 @ Mon, 29 Jun 2020 22:24:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.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 @ Mon, 29 Jun 2020 22:24:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:19: 1000000 INFO @ Mon, 29 Jun 2020 22:24:25: 2000000 INFO @ Mon, 29 Jun 2020 22:24:31: 3000000 INFO @ Mon, 29 Jun 2020 22:24:37: 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 @ Mon, 29 Jun 2020 22:24:43: 5000000 INFO @ Mon, 29 Jun 2020 22:24:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.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 @ Mon, 29 Jun 2020 22:24:43: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:43: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:49: 6000000 INFO @ Mon, 29 Jun 2020 22:24:49: 1000000 INFO @ Mon, 29 Jun 2020 22:24:56: 2000000 INFO @ Mon, 29 Jun 2020 22:24:56: 7000000 INFO @ Mon, 29 Jun 2020 22:25:02: 3000000 INFO @ Mon, 29 Jun 2020 22:25:02: 8000000 INFO @ Mon, 29 Jun 2020 22:25:08: 4000000 INFO @ Mon, 29 Jun 2020 22:25:09: 9000000 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 @ Mon, 29 Jun 2020 22:25:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.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 @ Mon, 29 Jun 2020 22:25:13: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:25:13: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:25:14: 5000000 INFO @ Mon, 29 Jun 2020 22:25:15: 10000000 INFO @ Mon, 29 Jun 2020 22:25:20: 1000000 INFO @ Mon, 29 Jun 2020 22:25:21: 6000000 INFO @ Mon, 29 Jun 2020 22:25:22: 11000000 INFO @ Mon, 29 Jun 2020 22:25:26: 2000000 INFO @ Mon, 29 Jun 2020 22:25:27: 7000000 INFO @ Mon, 29 Jun 2020 22:25:28: 12000000 INFO @ Mon, 29 Jun 2020 22:25:32: 3000000 INFO @ Mon, 29 Jun 2020 22:25:33: 8000000 INFO @ Mon, 29 Jun 2020 22:25:35: 13000000 INFO @ Mon, 29 Jun 2020 22:25:39: 4000000 INFO @ Mon, 29 Jun 2020 22:25:40: 9000000 INFO @ Mon, 29 Jun 2020 22:25:41: 14000000 INFO @ Mon, 29 Jun 2020 22:25:45: 5000000 INFO @ Mon, 29 Jun 2020 22:25:46: 10000000 INFO @ Mon, 29 Jun 2020 22:25:48: 15000000 INFO @ Mon, 29 Jun 2020 22:25:52: 6000000 INFO @ Mon, 29 Jun 2020 22:25:53: 11000000 INFO @ Mon, 29 Jun 2020 22:25:54: 16000000 INFO @ Mon, 29 Jun 2020 22:25:58: 7000000 INFO @ Mon, 29 Jun 2020 22:25:59: 12000000 INFO @ Mon, 29 Jun 2020 22:26:01: 17000000 INFO @ Mon, 29 Jun 2020 22:26:04: 8000000 INFO @ Mon, 29 Jun 2020 22:26:05: 13000000 INFO @ Mon, 29 Jun 2020 22:26:07: 18000000 INFO @ Mon, 29 Jun 2020 22:26:11: 9000000 INFO @ Mon, 29 Jun 2020 22:26:12: 14000000 INFO @ Mon, 29 Jun 2020 22:26:14: 19000000 INFO @ Mon, 29 Jun 2020 22:26:17: 10000000 INFO @ Mon, 29 Jun 2020 22:26:18: 15000000 INFO @ Mon, 29 Jun 2020 22:26:20: 20000000 INFO @ Mon, 29 Jun 2020 22:26:23: 11000000 INFO @ Mon, 29 Jun 2020 22:26:24: 16000000 INFO @ Mon, 29 Jun 2020 22:26:27: 21000000 INFO @ Mon, 29 Jun 2020 22:26:29: 12000000 INFO @ Mon, 29 Jun 2020 22:26:30: 17000000 INFO @ Mon, 29 Jun 2020 22:26:34: 22000000 INFO @ Mon, 29 Jun 2020 22:26:35: 13000000 INFO @ Mon, 29 Jun 2020 22:26:36: 18000000 INFO @ Mon, 29 Jun 2020 22:26:41: 23000000 INFO @ Mon, 29 Jun 2020 22:26:42: 14000000 INFO @ Mon, 29 Jun 2020 22:26:43: 19000000 INFO @ Mon, 29 Jun 2020 22:26:48: 15000000 INFO @ Mon, 29 Jun 2020 22:26:48: 24000000 INFO @ Mon, 29 Jun 2020 22:26:49: 20000000 INFO @ Mon, 29 Jun 2020 22:26:54: 16000000 INFO @ Mon, 29 Jun 2020 22:26:55: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:26:55: 21000000 INFO @ Mon, 29 Jun 2020 22:26:57: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:26:57: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:26:57: #1 total tags in treatment: 25358468 INFO @ Mon, 29 Jun 2020 22:26:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:26:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:26:57: #1 tags after filtering in treatment: 25358468 INFO @ Mon, 29 Jun 2020 22:26:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:57: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:26:59: #2 number of paired peaks: 28 WARNING @ Mon, 29 Jun 2020 22:26:59: Too few paired peaks (28) 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 @ Mon, 29 Jun 2020 22:26:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.05_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/SRX041386/SRX041386.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:27:00: 17000000 INFO @ Mon, 29 Jun 2020 22:27:02: 22000000 INFO @ Mon, 29 Jun 2020 22:27:05: 18000000 INFO @ Mon, 29 Jun 2020 22:27:08: 23000000 INFO @ Mon, 29 Jun 2020 22:27:11: 19000000 INFO @ Mon, 29 Jun 2020 22:27:13: 24000000 INFO @ Mon, 29 Jun 2020 22:27:17: 20000000 INFO @ Mon, 29 Jun 2020 22:27:19: 25000000 INFO @ Mon, 29 Jun 2020 22:27:21: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:27:21: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:27:21: #1 total tags in treatment: 25358468 INFO @ Mon, 29 Jun 2020 22:27:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:27:22: #1 tags after filtering in treatment: 25358468 INFO @ Mon, 29 Jun 2020 22:27:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:22: 21000000 INFO @ Mon, 29 Jun 2020 22:27:23: #2 number of paired peaks: 28 WARNING @ Mon, 29 Jun 2020 22:27:23: Too few paired peaks (28) 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 @ Mon, 29 Jun 2020 22:27:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.10_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/SRX041386/SRX041386.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:27:28: 22000000 INFO @ Mon, 29 Jun 2020 22:27:33: 23000000 INFO @ Mon, 29 Jun 2020 22:27:38: 24000000 INFO @ Mon, 29 Jun 2020 22:27:43: 25000000 INFO @ Mon, 29 Jun 2020 22:27:45: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:27:45: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:27:45: #1 total tags in treatment: 25358468 INFO @ Mon, 29 Jun 2020 22:27:45: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:27:45: #1 tags after filtering in treatment: 25358468 INFO @ Mon, 29 Jun 2020 22:27:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:45: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:45: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:47: #2 number of paired peaks: 28 WARNING @ Mon, 29 Jun 2020 22:27:47: Too few paired peaks (28) 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 @ Mon, 29 Jun 2020 22:27:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.20_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/SRX041386/SRX041386.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041386/SRX041386.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。