Job ID = 6527625 SRX = SRX1550621 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:05:06 prefetch.2.10.7: 1) Downloading 'SRR3130899'... 2020-06-29T13:05:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:05:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:05:46 prefetch.2.10.7: 'SRR3130899' is valid 2020-06-29T13:05:46 prefetch.2.10.7: 1) 'SRR3130899' was downloaded successfully Read 4000000 spots for SRR3130899/SRR3130899.sra Written 4000000 spots for SRR3130899/SRR3130899.sra 2020-06-29T13:06:13 prefetch.2.10.7: 1) Downloading 'SRR3130900'... 2020-06-29T13:06:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:07:12 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:07:12 prefetch.2.10.7: 'SRR3130900' is valid 2020-06-29T13:07:12 prefetch.2.10.7: 1) 'SRR3130900' was downloaded successfully Read 4000000 spots for SRR3130900/SRR3130900.sra Written 4000000 spots for SRR3130900/SRR3130900.sra 2020-06-29T13:07:34 prefetch.2.10.7: 1) Downloading 'SRR3130901'... 2020-06-29T13:07:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:07:52 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:07:52 prefetch.2.10.7: 'SRR3130901' is valid 2020-06-29T13:07:52 prefetch.2.10.7: 1) 'SRR3130901' was downloaded successfully Read 406495 spots for SRR3130901/SRR3130901.sra Written 406495 spots for SRR3130901/SRR3130901.sra 2020-06-29T13:08:08 prefetch.2.10.7: 1) Downloading 'SRR3130902'... 2020-06-29T13:08:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:08:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:08:55 prefetch.2.10.7: 'SRR3130902' is valid 2020-06-29T13:08:55 prefetch.2.10.7: 1) 'SRR3130902' was downloaded successfully Read 4000000 spots for SRR3130902/SRR3130902.sra Written 4000000 spots for SRR3130902/SRR3130902.sra 2020-06-29T13:09:21 prefetch.2.10.7: 1) Downloading 'SRR3130903'... 2020-06-29T13:09:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:10:18 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:10:18 prefetch.2.10.7: 'SRR3130903' is valid 2020-06-29T13:10:18 prefetch.2.10.7: 1) 'SRR3130903' was downloaded successfully Read 4000000 spots for SRR3130903/SRR3130903.sra Written 4000000 spots for SRR3130903/SRR3130903.sra 2020-06-29T13:10:41 prefetch.2.10.7: 1) Downloading 'SRR3130904'... 2020-06-29T13:10:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:12:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:12:04 prefetch.2.10.7: 'SRR3130904' is valid 2020-06-29T13:12:04 prefetch.2.10.7: 1) 'SRR3130904' was downloaded successfully Read 4000000 spots for SRR3130904/SRR3130904.sra Written 4000000 spots for SRR3130904/SRR3130904.sra 2020-06-29T13:12:27 prefetch.2.10.7: 1) Downloading 'SRR3130905'... 2020-06-29T13:12:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:34 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:34 prefetch.2.10.7: 'SRR3130905' is valid 2020-06-29T13:13:34 prefetch.2.10.7: 1) 'SRR3130905' was downloaded successfully Read 4000000 spots for SRR3130905/SRR3130905.sra Written 4000000 spots for SRR3130905/SRR3130905.sra 2020-06-29T13:14:03 prefetch.2.10.7: 1) Downloading 'SRR3130906'... 2020-06-29T13:14:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:14:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:14:55 prefetch.2.10.7: 'SRR3130906' is valid 2020-06-29T13:14:55 prefetch.2.10.7: 1) 'SRR3130906' was downloaded successfully Read 4000000 spots for SRR3130906/SRR3130906.sra Written 4000000 spots for SRR3130906/SRR3130906.sra 2020-06-29T13:15:18 prefetch.2.10.7: 1) Downloading 'SRR3130907'... 2020-06-29T13:15:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:16:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:16:01 prefetch.2.10.7: 'SRR3130907' is valid 2020-06-29T13:16:01 prefetch.2.10.7: 1) 'SRR3130907' was downloaded successfully Read 4000000 spots for SRR3130907/SRR3130907.sra Written 4000000 spots for SRR3130907/SRR3130907.sra 2020-06-29T13:16:28 prefetch.2.10.7: 1) Downloading 'SRR3130908'... 2020-06-29T13:16:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:17:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:17:05 prefetch.2.10.7: 'SRR3130908' is valid 2020-06-29T13:17:05 prefetch.2.10.7: 1) 'SRR3130908' was downloaded successfully Read 4000000 spots for SRR3130908/SRR3130908.sra Written 4000000 spots for SRR3130908/SRR3130908.sra 2020-06-29T13:17:30 prefetch.2.10.7: 1) Downloading 'SRR3130909'... 2020-06-29T13:17:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:18:13 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:18:13 prefetch.2.10.7: 'SRR3130909' is valid 2020-06-29T13:18:13 prefetch.2.10.7: 1) 'SRR3130909' was downloaded successfully Read 4000000 spots for SRR3130909/SRR3130909.sra Written 4000000 spots for SRR3130909/SRR3130909.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: 00:13:13 40406495 reads; of these: 40406495 (100.00%) were unpaired; of these: 2378252 (5.89%) aligned 0 times 29922441 (74.05%) aligned exactly 1 time 8105802 (20.06%) aligned >1 times 94.11% overall alignment rate Time searching: 00:13:13 Overall time: 00:13:13 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_rmdupse_core] 6258026 / 38028243 = 0.1646 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 22:52:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.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 22:52:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:52:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:52:30: 1000000 INFO @ Mon, 29 Jun 2020 22:52:35: 2000000 INFO @ Mon, 29 Jun 2020 22:52:41: 3000000 INFO @ Mon, 29 Jun 2020 22:52:46: 4000000 INFO @ Mon, 29 Jun 2020 22:52:52: 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 @ Mon, 29 Jun 2020 22:52:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.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 22:52:54: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:52:54: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:52:58: 6000000 INFO @ Mon, 29 Jun 2020 22:53:01: 1000000 INFO @ Mon, 29 Jun 2020 22:53:04: 7000000 INFO @ Mon, 29 Jun 2020 22:53:08: 2000000 INFO @ Mon, 29 Jun 2020 22:53:11: 8000000 INFO @ Mon, 29 Jun 2020 22:53:15: 3000000 INFO @ Mon, 29 Jun 2020 22:53:17: 9000000 INFO @ Mon, 29 Jun 2020 22:53:21: 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 @ Mon, 29 Jun 2020 22:53:24: 10000000 INFO @ Mon, 29 Jun 2020 22:53:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.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 22:53:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:53:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:53:28: 5000000 INFO @ Mon, 29 Jun 2020 22:53:31: 11000000 INFO @ Mon, 29 Jun 2020 22:53:31: 1000000 INFO @ Mon, 29 Jun 2020 22:53:35: 6000000 INFO @ Mon, 29 Jun 2020 22:53:37: 12000000 INFO @ Mon, 29 Jun 2020 22:53:38: 2000000 INFO @ Mon, 29 Jun 2020 22:53:42: 7000000 INFO @ Mon, 29 Jun 2020 22:53:44: 13000000 INFO @ Mon, 29 Jun 2020 22:53:45: 3000000 INFO @ Mon, 29 Jun 2020 22:53:49: 8000000 INFO @ Mon, 29 Jun 2020 22:53:51: 14000000 INFO @ Mon, 29 Jun 2020 22:53:52: 4000000 INFO @ Mon, 29 Jun 2020 22:53:56: 9000000 INFO @ Mon, 29 Jun 2020 22:53:57: 15000000 INFO @ Mon, 29 Jun 2020 22:53:59: 5000000 INFO @ Mon, 29 Jun 2020 22:54:02: 10000000 INFO @ Mon, 29 Jun 2020 22:54:04: 16000000 INFO @ Mon, 29 Jun 2020 22:54:05: 6000000 INFO @ Mon, 29 Jun 2020 22:54:09: 11000000 INFO @ Mon, 29 Jun 2020 22:54:11: 17000000 INFO @ Mon, 29 Jun 2020 22:54:12: 7000000 INFO @ Mon, 29 Jun 2020 22:54:16: 12000000 INFO @ Mon, 29 Jun 2020 22:54:17: 18000000 INFO @ Mon, 29 Jun 2020 22:54:19: 8000000 INFO @ Mon, 29 Jun 2020 22:54:23: 13000000 INFO @ Mon, 29 Jun 2020 22:54:24: 19000000 INFO @ Mon, 29 Jun 2020 22:54:26: 9000000 INFO @ Mon, 29 Jun 2020 22:54:30: 14000000 INFO @ Mon, 29 Jun 2020 22:54:30: 20000000 INFO @ Mon, 29 Jun 2020 22:54:33: 10000000 INFO @ Mon, 29 Jun 2020 22:54:37: 15000000 INFO @ Mon, 29 Jun 2020 22:54:37: 21000000 INFO @ Mon, 29 Jun 2020 22:54:40: 11000000 INFO @ Mon, 29 Jun 2020 22:54:44: 22000000 INFO @ Mon, 29 Jun 2020 22:54:44: 16000000 INFO @ Mon, 29 Jun 2020 22:54:48: 12000000 INFO @ Mon, 29 Jun 2020 22:54:50: 23000000 INFO @ Mon, 29 Jun 2020 22:54:51: 17000000 INFO @ Mon, 29 Jun 2020 22:54:55: 13000000 INFO @ Mon, 29 Jun 2020 22:54:57: 24000000 INFO @ Mon, 29 Jun 2020 22:54:58: 18000000 INFO @ Mon, 29 Jun 2020 22:55:01: 14000000 INFO @ Mon, 29 Jun 2020 22:55:03: 25000000 INFO @ Mon, 29 Jun 2020 22:55:05: 19000000 INFO @ Mon, 29 Jun 2020 22:55:08: 15000000 INFO @ Mon, 29 Jun 2020 22:55:10: 26000000 INFO @ Mon, 29 Jun 2020 22:55:12: 20000000 INFO @ Mon, 29 Jun 2020 22:55:15: 16000000 INFO @ Mon, 29 Jun 2020 22:55:17: 27000000 INFO @ Mon, 29 Jun 2020 22:55:19: 21000000 INFO @ Mon, 29 Jun 2020 22:55:22: 17000000 INFO @ Mon, 29 Jun 2020 22:55:23: 28000000 INFO @ Mon, 29 Jun 2020 22:55:26: 22000000 INFO @ Mon, 29 Jun 2020 22:55:29: 18000000 INFO @ Mon, 29 Jun 2020 22:55:30: 29000000 INFO @ Mon, 29 Jun 2020 22:55:33: 23000000 INFO @ Mon, 29 Jun 2020 22:55:36: 19000000 INFO @ Mon, 29 Jun 2020 22:55:36: 30000000 INFO @ Mon, 29 Jun 2020 22:55:39: 24000000 INFO @ Mon, 29 Jun 2020 22:55:43: 20000000 INFO @ Mon, 29 Jun 2020 22:55:43: 31000000 INFO @ Mon, 29 Jun 2020 22:55:46: 25000000 INFO @ Mon, 29 Jun 2020 22:55:49: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:55:49: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:55:49: #1 total tags in treatment: 31770217 INFO @ Mon, 29 Jun 2020 22:55:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:55:49: #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 22:55:49: #1 tags after filtering in treatment: 31770217 INFO @ Mon, 29 Jun 2020 22:55:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:55:49: #1 finished! INFO @ Mon, 29 Jun 2020 22:55:49: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:55:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:55:50: 21000000 INFO @ Mon, 29 Jun 2020 22:55:51: #2 number of paired peaks: 61 WARNING @ Mon, 29 Jun 2020 22:55:51: Too few paired peaks (61) 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 22:55:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.05_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/SRX1550621/SRX1550621.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:55:53: 26000000 INFO @ Mon, 29 Jun 2020 22:55:57: 22000000 INFO @ Mon, 29 Jun 2020 22:56:00: 27000000 INFO @ Mon, 29 Jun 2020 22:56:04: 23000000 INFO @ Mon, 29 Jun 2020 22:56:07: 28000000 INFO @ Mon, 29 Jun 2020 22:56:10: 24000000 INFO @ Mon, 29 Jun 2020 22:56:14: 29000000 INFO @ Mon, 29 Jun 2020 22:56:17: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:56:20: 30000000 INFO @ Mon, 29 Jun 2020 22:56:24: 26000000 INFO @ Mon, 29 Jun 2020 22:56:27: 31000000 INFO @ Mon, 29 Jun 2020 22:56:31: 27000000 INFO @ Mon, 29 Jun 2020 22:56:33: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:56:33: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:56:33: #1 total tags in treatment: 31770217 INFO @ Mon, 29 Jun 2020 22:56:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:56:33: #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 22:56:33: #1 tags after filtering in treatment: 31770217 INFO @ Mon, 29 Jun 2020 22:56:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:56:33: #1 finished! INFO @ Mon, 29 Jun 2020 22:56:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:56:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:56:35: #2 number of paired peaks: 61 WARNING @ Mon, 29 Jun 2020 22:56:35: Too few paired peaks (61) 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 22:56:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.10_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/SRX1550621/SRX1550621.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:56:37: 28000000 INFO @ Mon, 29 Jun 2020 22:56:44: 29000000 INFO @ Mon, 29 Jun 2020 22:56:50: 30000000 INFO @ Mon, 29 Jun 2020 22:56:57: 31000000 INFO @ Mon, 29 Jun 2020 22:57:02: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:57:02: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:57:02: #1 total tags in treatment: 31770217 INFO @ Mon, 29 Jun 2020 22:57:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:57:02: #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 22:57:02: #1 tags after filtering in treatment: 31770217 INFO @ Mon, 29 Jun 2020 22:57:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:57:02: #1 finished! INFO @ Mon, 29 Jun 2020 22:57:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:57:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:57:04: #2 number of paired peaks: 61 WARNING @ Mon, 29 Jun 2020 22:57:04: Too few paired peaks (61) 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 22:57:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.20_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/SRX1550621/SRX1550621.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1550621/SRX1550621.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。