Job ID = 1294349 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2019-06-02T21:36:45 fasterq-dump.2.9.6 sys: connection not found while validating within network system module - Failed to Make Connection in KClientHttpOpen to 'sra-download-internal.ncbi.nlm.nih.gov:443' 2019-06-02T21:36:45 fasterq-dump.2.9.6 err: connection not found while validating within network system module - error with https open 'https://sra-download-internal.ncbi.nlm.nih.gov/traces/sra46/SRR/005188/SRR5312689' 2019-06-02T21:36:54 fasterq-dump.2.9.6 err: cmn_iter.c cmn_iter_open_tbl().VDBManagerOpenTableRead( 'SRR5312689' ) -> RC(rcDB,rcMgr,rcOpening,rcTable,rcIncorrect) 2019-06-02T21:36:54 fasterq-dump.2.9.6 err: make_fastq_iter() -> RC(rcDB,rcMgr,rcOpening,rcTable,rcIncorrect) 2019-06-02T21:38:21 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-02T21:38:21 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-02T21:38:21 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-02T21:57:53 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-02T22:04:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-02T22:30:20 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 36,222,682 reads read : 72,445,364 reads written : 72,445,364 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: No such file or directory 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: 01:31:10 36222682 reads; of these: 36222682 (100.00%) were paired; of these: 2346209 (6.48%) aligned concordantly 0 times 25508097 (70.42%) aligned concordantly exactly 1 time 8368376 (23.10%) aligned concordantly >1 times ---- 2346209 pairs aligned concordantly 0 times; of these: 513988 (21.91%) aligned discordantly 1 time ---- 1832221 pairs aligned 0 times concordantly or discordantly; of these: 3664442 mates make up the pairs; of these: 1814915 (49.53%) aligned 0 times 1072506 (29.27%) aligned exactly 1 time 777021 (21.20%) aligned >1 times 97.49% overall alignment rate Time searching: 01:31:10 Overall time: 01:31:10 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 32 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] 1664487 / 34239643 = 0.0486 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Mon, 03 Jun 2019 09:50:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.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, 03 Jun 2019 09:50:16: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:50:16: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:50:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.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, 03 Jun 2019 09:50:16: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:50:16: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:50:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.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, 03 Jun 2019 09:50:16: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:50:16: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:50:23: 1000000 INFO @ Mon, 03 Jun 2019 09:50:25: 1000000 INFO @ Mon, 03 Jun 2019 09:50:26: 1000000 INFO @ Mon, 03 Jun 2019 09:50:30: 2000000 INFO @ Mon, 03 Jun 2019 09:50:35: 2000000 INFO @ Mon, 03 Jun 2019 09:50:36: 2000000 INFO @ Mon, 03 Jun 2019 09:50:37: 3000000 INFO @ Mon, 03 Jun 2019 09:50:44: 3000000 INFO @ Mon, 03 Jun 2019 09:50:44: 4000000 INFO @ Mon, 03 Jun 2019 09:50:47: 3000000 INFO @ Mon, 03 Jun 2019 09:50:51: 5000000 INFO @ Mon, 03 Jun 2019 09:50:53: 4000000 INFO @ Mon, 03 Jun 2019 09:50:57: 4000000 INFO @ Mon, 03 Jun 2019 09:50:58: 6000000 INFO @ Mon, 03 Jun 2019 09:51:03: 5000000 INFO @ Mon, 03 Jun 2019 09:51:06: 7000000 INFO @ Mon, 03 Jun 2019 09:51:07: 5000000 INFO @ Mon, 03 Jun 2019 09:51:12: 6000000 INFO @ Mon, 03 Jun 2019 09:51:13: 8000000 INFO @ Mon, 03 Jun 2019 09:51:18: 6000000 INFO @ Mon, 03 Jun 2019 09:51:20: 9000000 INFO @ Mon, 03 Jun 2019 09:51:21: 7000000 INFO @ Mon, 03 Jun 2019 09:51:27: 10000000 INFO @ Mon, 03 Jun 2019 09:51:28: 7000000 INFO @ Mon, 03 Jun 2019 09:51:31: 8000000 INFO @ Mon, 03 Jun 2019 09:51:34: 11000000 INFO @ Mon, 03 Jun 2019 09:51:37: 8000000 INFO @ Mon, 03 Jun 2019 09:51:41: 9000000 INFO @ Mon, 03 Jun 2019 09:51:41: 12000000 INFO @ Mon, 03 Jun 2019 09:51:47: 9000000 INFO @ Mon, 03 Jun 2019 09:51:48: 13000000 INFO @ Mon, 03 Jun 2019 09:51:51: 10000000 INFO @ Mon, 03 Jun 2019 09:51:55: 14000000 INFO @ Mon, 03 Jun 2019 09:51:58: 10000000 INFO @ Mon, 03 Jun 2019 09:52:01: 11000000 INFO @ Mon, 03 Jun 2019 09:52:02: 15000000 INFO @ Mon, 03 Jun 2019 09:52:08: 11000000 INFO @ Mon, 03 Jun 2019 09:52:09: 16000000 INFO @ Mon, 03 Jun 2019 09:52:11: 12000000 INFO @ Mon, 03 Jun 2019 09:52:16: 17000000 INFO @ Mon, 03 Jun 2019 09:52:18: 12000000 INFO @ Mon, 03 Jun 2019 09:52:21: 13000000 INFO @ Mon, 03 Jun 2019 09:52:23: 18000000 INFO @ Mon, 03 Jun 2019 09:52:28: 13000000 INFO @ Mon, 03 Jun 2019 09:52:31: 19000000 INFO @ Mon, 03 Jun 2019 09:52:31: 14000000 INFO @ Mon, 03 Jun 2019 09:52:38: 20000000 INFO @ Mon, 03 Jun 2019 09:52:38: 14000000 INFO @ Mon, 03 Jun 2019 09:52:41: 15000000 INFO @ Mon, 03 Jun 2019 09:52:45: 21000000 INFO @ Mon, 03 Jun 2019 09:52:48: 15000000 INFO @ Mon, 03 Jun 2019 09:52:51: 16000000 INFO @ Mon, 03 Jun 2019 09:52:52: 22000000 INFO @ Mon, 03 Jun 2019 09:52:58: 16000000 INFO @ Mon, 03 Jun 2019 09:52:59: 23000000 INFO @ Mon, 03 Jun 2019 09:53:01: 17000000 INFO @ Mon, 03 Jun 2019 09:53:06: 24000000 INFO @ Mon, 03 Jun 2019 09:53:08: 17000000 INFO @ Mon, 03 Jun 2019 09:53:11: 18000000 INFO @ Mon, 03 Jun 2019 09:53:13: 25000000 INFO @ Mon, 03 Jun 2019 09:53:19: 18000000 INFO @ Mon, 03 Jun 2019 09:53:20: 26000000 INFO @ Mon, 03 Jun 2019 09:53:21: 19000000 INFO @ Mon, 03 Jun 2019 09:53:27: 27000000 INFO @ Mon, 03 Jun 2019 09:53:29: 19000000 INFO @ Mon, 03 Jun 2019 09:53:31: 20000000 INFO @ Mon, 03 Jun 2019 09:53:34: 28000000 INFO @ Mon, 03 Jun 2019 09:53:39: 20000000 INFO @ Mon, 03 Jun 2019 09:53:41: 21000000 INFO @ Mon, 03 Jun 2019 09:53:41: 29000000 INFO @ Mon, 03 Jun 2019 09:53:48: 30000000 INFO @ Mon, 03 Jun 2019 09:53:49: 21000000 INFO @ Mon, 03 Jun 2019 09:53:51: 22000000 INFO @ Mon, 03 Jun 2019 09:53:55: 31000000 INFO @ Mon, 03 Jun 2019 09:53:59: 22000000 INFO @ Mon, 03 Jun 2019 09:54:01: 23000000 INFO @ Mon, 03 Jun 2019 09:54:02: 32000000 INFO @ Mon, 03 Jun 2019 09:54:09: 23000000 INFO @ Mon, 03 Jun 2019 09:54:09: 24000000 INFO @ Mon, 03 Jun 2019 09:54:09: 33000000 INFO @ Mon, 03 Jun 2019 09:54:16: 34000000 INFO @ Mon, 03 Jun 2019 09:54:18: 25000000 INFO @ Mon, 03 Jun 2019 09:54:19: 24000000 INFO @ Mon, 03 Jun 2019 09:54:23: 35000000 INFO @ Mon, 03 Jun 2019 09:54:27: 26000000 INFO @ Mon, 03 Jun 2019 09:54:30: 25000000 INFO @ Mon, 03 Jun 2019 09:54:30: 36000000 INFO @ Mon, 03 Jun 2019 09:54:36: 27000000 INFO @ Mon, 03 Jun 2019 09:54:37: 37000000 INFO @ Mon, 03 Jun 2019 09:54:39: 26000000 INFO @ Mon, 03 Jun 2019 09:54:44: 38000000 INFO @ Mon, 03 Jun 2019 09:54:45: 28000000 INFO @ Mon, 03 Jun 2019 09:54:49: 27000000 INFO @ Mon, 03 Jun 2019 09:54:51: 39000000 INFO @ Mon, 03 Jun 2019 09:54:55: 29000000 INFO @ Mon, 03 Jun 2019 09:54:58: 40000000 INFO @ Mon, 03 Jun 2019 09:55:00: 28000000 INFO @ Mon, 03 Jun 2019 09:55:04: 30000000 INFO @ Mon, 03 Jun 2019 09:55:06: 41000000 INFO @ Mon, 03 Jun 2019 09:55:10: 29000000 INFO @ Mon, 03 Jun 2019 09:55:13: 42000000 INFO @ Mon, 03 Jun 2019 09:55:13: 31000000 INFO @ Mon, 03 Jun 2019 09:55:20: 30000000 INFO @ Mon, 03 Jun 2019 09:55:20: 43000000 INFO @ Mon, 03 Jun 2019 09:55:22: 32000000 INFO @ Mon, 03 Jun 2019 09:55:27: 44000000 INFO @ Mon, 03 Jun 2019 09:55:30: 31000000 INFO @ Mon, 03 Jun 2019 09:55:31: 33000000 INFO @ Mon, 03 Jun 2019 09:55:34: 45000000 INFO @ Mon, 03 Jun 2019 09:55:40: 34000000 INFO @ Mon, 03 Jun 2019 09:55:41: 32000000 INFO @ Mon, 03 Jun 2019 09:55:41: 46000000 INFO @ Mon, 03 Jun 2019 09:55:48: 47000000 INFO @ Mon, 03 Jun 2019 09:55:50: 35000000 INFO @ Mon, 03 Jun 2019 09:55:51: 33000000 INFO @ Mon, 03 Jun 2019 09:55:55: 48000000 INFO @ Mon, 03 Jun 2019 09:55:59: 36000000 INFO @ Mon, 03 Jun 2019 09:56:01: 34000000 INFO @ Mon, 03 Jun 2019 09:56:02: 49000000 INFO @ Mon, 03 Jun 2019 09:56:08: 37000000 INFO @ Mon, 03 Jun 2019 09:56:09: 50000000 INFO @ Mon, 03 Jun 2019 09:56:11: 35000000 INFO @ Mon, 03 Jun 2019 09:56:16: 51000000 INFO @ Mon, 03 Jun 2019 09:56:17: 38000000 INFO @ Mon, 03 Jun 2019 09:56:21: 36000000 INFO @ Mon, 03 Jun 2019 09:56:23: 52000000 INFO @ Mon, 03 Jun 2019 09:56:26: 39000000 INFO @ Mon, 03 Jun 2019 09:56:31: 53000000 INFO @ Mon, 03 Jun 2019 09:56:31: 37000000 INFO @ Mon, 03 Jun 2019 09:56:35: 40000000 INFO @ Mon, 03 Jun 2019 09:56:38: 54000000 INFO @ Mon, 03 Jun 2019 09:56:40: 38000000 INFO @ Mon, 03 Jun 2019 09:56:44: 41000000 INFO @ Mon, 03 Jun 2019 09:56:45: 55000000 INFO @ Mon, 03 Jun 2019 09:56:50: 39000000 INFO @ Mon, 03 Jun 2019 09:56:52: 56000000 INFO @ Mon, 03 Jun 2019 09:56:53: 42000000 INFO @ Mon, 03 Jun 2019 09:56:59: 57000000 INFO @ Mon, 03 Jun 2019 09:57:01: 40000000 INFO @ Mon, 03 Jun 2019 09:57:03: 43000000 INFO @ Mon, 03 Jun 2019 09:57:06: 58000000 INFO @ Mon, 03 Jun 2019 09:57:11: 41000000 INFO @ Mon, 03 Jun 2019 09:57:12: 44000000 INFO @ Mon, 03 Jun 2019 09:57:13: 59000000 INFO @ Mon, 03 Jun 2019 09:57:20: 60000000 INFO @ Mon, 03 Jun 2019 09:57:21: 42000000 INFO @ Mon, 03 Jun 2019 09:57:21: 45000000 INFO @ Mon, 03 Jun 2019 09:57:27: 61000000 INFO @ Mon, 03 Jun 2019 09:57:30: 46000000 INFO @ Mon, 03 Jun 2019 09:57:31: 43000000 INFO @ Mon, 03 Jun 2019 09:57:34: 62000000 INFO @ Mon, 03 Jun 2019 09:57:39: 47000000 INFO @ Mon, 03 Jun 2019 09:57:41: 44000000 INFO @ Mon, 03 Jun 2019 09:57:41: 63000000 INFO @ Mon, 03 Jun 2019 09:57:48: 48000000 INFO @ Mon, 03 Jun 2019 09:57:48: 64000000 INFO @ Mon, 03 Jun 2019 09:57:51: 45000000 INFO @ Mon, 03 Jun 2019 09:57:56: 65000000 INFO @ Mon, 03 Jun 2019 09:57:57: 49000000 INFO @ Mon, 03 Jun 2019 09:58:00: 46000000 INFO @ Mon, 03 Jun 2019 09:58:03: 66000000 INFO @ Mon, 03 Jun 2019 09:58:07: 50000000 INFO @ Mon, 03 Jun 2019 09:58:10: 67000000 INFO @ Mon, 03 Jun 2019 09:58:11: 47000000 INFO @ Mon, 03 Jun 2019 09:58:12: #1 tag size is determined as 51 bps INFO @ Mon, 03 Jun 2019 09:58:12: #1 tag size = 51 INFO @ Mon, 03 Jun 2019 09:58:12: #1 total tags in treatment: 32220719 INFO @ Mon, 03 Jun 2019 09:58:12: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:58:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 09:58:13: #1 tags after filtering in treatment: 29105158 INFO @ Mon, 03 Jun 2019 09:58:13: #1 Redundant rate of treatment: 0.10 INFO @ Mon, 03 Jun 2019 09:58:13: #1 finished! INFO @ Mon, 03 Jun 2019 09:58:13: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:58:13: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:58:15: #2 number of paired peaks: 173 WARNING @ Mon, 03 Jun 2019 09:58:15: Fewer paired peaks (173) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 173 pairs to build model! INFO @ Mon, 03 Jun 2019 09:58:15: start model_add_line... INFO @ Mon, 03 Jun 2019 09:58:16: start X-correlation... INFO @ Mon, 03 Jun 2019 09:58:16: end of X-cor INFO @ Mon, 03 Jun 2019 09:58:16: #2 finished! INFO @ Mon, 03 Jun 2019 09:58:16: #2 predicted fragment length is 159 bps INFO @ Mon, 03 Jun 2019 09:58:16: #2 alternative fragment length(s) may be 4,152,159 bps INFO @ Mon, 03 Jun 2019 09:58:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.10_model.r INFO @ Mon, 03 Jun 2019 09:58:16: #3 Call peaks... INFO @ Mon, 03 Jun 2019 09:58:16: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 03 Jun 2019 09:58:16: 51000000 INFO @ Mon, 03 Jun 2019 09:58:22: 48000000 INFO @ Mon, 03 Jun 2019 09:58:25: 52000000 INFO @ Mon, 03 Jun 2019 09:58:31: 49000000 INFO @ Mon, 03 Jun 2019 09:58:34: 53000000 INFO @ Mon, 03 Jun 2019 09:58:41: 50000000 INFO @ Mon, 03 Jun 2019 09:58:43: 54000000 INFO @ Mon, 03 Jun 2019 09:58:51: 51000000 INFO @ Mon, 03 Jun 2019 09:58:52: 55000000 INFO @ Mon, 03 Jun 2019 09:59:01: 56000000 INFO @ Mon, 03 Jun 2019 09:59:01: 52000000 INFO @ Mon, 03 Jun 2019 09:59:10: 57000000 INFO @ Mon, 03 Jun 2019 09:59:11: 53000000 INFO @ Mon, 03 Jun 2019 09:59:19: 58000000 INFO @ Mon, 03 Jun 2019 09:59:21: 54000000 INFO @ Mon, 03 Jun 2019 09:59:28: #3 Call peaks for each chromosome... INFO @ Mon, 03 Jun 2019 09:59:28: 59000000 INFO @ Mon, 03 Jun 2019 09:59:31: 55000000 INFO @ Mon, 03 Jun 2019 09:59:37: 60000000 INFO @ Mon, 03 Jun 2019 09:59:41: 56000000 INFO @ Mon, 03 Jun 2019 09:59:46: 61000000 INFO @ Mon, 03 Jun 2019 09:59:51: 57000000 INFO @ Mon, 03 Jun 2019 09:59:55: 62000000 INFO @ Mon, 03 Jun 2019 10:00:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.10_peaks.xls INFO @ Mon, 03 Jun 2019 10:00:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.10_peaks.narrowPeak INFO @ Mon, 03 Jun 2019 10:00:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.10_summits.bed INFO @ Mon, 03 Jun 2019 10:00:01: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (1832 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 10:00:01: 58000000 INFO @ Mon, 03 Jun 2019 10:00:04: 63000000 INFO @ Mon, 03 Jun 2019 10:00:11: 59000000 INFO @ Mon, 03 Jun 2019 10:00:13: 64000000 INFO @ Mon, 03 Jun 2019 10:00:21: 60000000 INFO @ Mon, 03 Jun 2019 10:00:22: 65000000 INFO @ Mon, 03 Jun 2019 10:00:30: 61000000 INFO @ Mon, 03 Jun 2019 10:00:31: 66000000 INFO @ Mon, 03 Jun 2019 10:00:40: 67000000 INFO @ Mon, 03 Jun 2019 10:00:40: 62000000 INFO @ Mon, 03 Jun 2019 10:00:43: #1 tag size is determined as 51 bps INFO @ Mon, 03 Jun 2019 10:00:43: #1 tag size = 51 INFO @ Mon, 03 Jun 2019 10:00:43: #1 total tags in treatment: 32220719 INFO @ Mon, 03 Jun 2019 10:00:43: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 10:00:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 10:00:44: #1 tags after filtering in treatment: 29105158 INFO @ Mon, 03 Jun 2019 10:00:44: #1 Redundant rate of treatment: 0.10 INFO @ Mon, 03 Jun 2019 10:00:44: #1 finished! INFO @ Mon, 03 Jun 2019 10:00:44: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 10:00:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 10:00:46: #2 number of paired peaks: 173 WARNING @ Mon, 03 Jun 2019 10:00:46: Fewer paired peaks (173) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 173 pairs to build model! INFO @ Mon, 03 Jun 2019 10:00:46: start model_add_line... INFO @ Mon, 03 Jun 2019 10:00:47: start X-correlation... INFO @ Mon, 03 Jun 2019 10:00:47: end of X-cor INFO @ Mon, 03 Jun 2019 10:00:47: #2 finished! INFO @ Mon, 03 Jun 2019 10:00:47: #2 predicted fragment length is 159 bps INFO @ Mon, 03 Jun 2019 10:00:47: #2 alternative fragment length(s) may be 4,152,159 bps INFO @ Mon, 03 Jun 2019 10:00:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.20_model.r INFO @ Mon, 03 Jun 2019 10:00:47: #3 Call peaks... INFO @ Mon, 03 Jun 2019 10:00:47: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 03 Jun 2019 10:00:51: 63000000 INFO @ Mon, 03 Jun 2019 10:01:00: 64000000 INFO @ Mon, 03 Jun 2019 10:01:10: 65000000 INFO @ Mon, 03 Jun 2019 10:01:20: 66000000 INFO @ Mon, 03 Jun 2019 10:01:29: 67000000 INFO @ Mon, 03 Jun 2019 10:01:32: #1 tag size is determined as 51 bps INFO @ Mon, 03 Jun 2019 10:01:32: #1 tag size = 51 INFO @ Mon, 03 Jun 2019 10:01:32: #1 total tags in treatment: 32220719 INFO @ Mon, 03 Jun 2019 10:01:32: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 10:01:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 10:01:33: #1 tags after filtering in treatment: 29105158 INFO @ Mon, 03 Jun 2019 10:01:33: #1 Redundant rate of treatment: 0.10 INFO @ Mon, 03 Jun 2019 10:01:33: #1 finished! INFO @ Mon, 03 Jun 2019 10:01:33: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 10:01:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 10:01:36: #2 number of paired peaks: 173 WARNING @ Mon, 03 Jun 2019 10:01:36: Fewer paired peaks (173) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 173 pairs to build model! INFO @ Mon, 03 Jun 2019 10:01:36: start model_add_line... INFO @ Mon, 03 Jun 2019 10:01:36: start X-correlation... INFO @ Mon, 03 Jun 2019 10:01:36: end of X-cor INFO @ Mon, 03 Jun 2019 10:01:36: #2 finished! INFO @ Mon, 03 Jun 2019 10:01:36: #2 predicted fragment length is 159 bps INFO @ Mon, 03 Jun 2019 10:01:36: #2 alternative fragment length(s) may be 4,152,159 bps INFO @ Mon, 03 Jun 2019 10:01:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.05_model.r INFO @ Mon, 03 Jun 2019 10:01:36: #3 Call peaks... INFO @ Mon, 03 Jun 2019 10:01:36: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 03 Jun 2019 10:01:59: #3 Call peaks for each chromosome... INFO @ Mon, 03 Jun 2019 10:02:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.20_peaks.xls INFO @ Mon, 03 Jun 2019 10:02:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.20_peaks.narrowPeak INFO @ Mon, 03 Jun 2019 10:02:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.20_summits.bed INFO @ Mon, 03 Jun 2019 10:02:32: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (886 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 10:02:49: #3 Call peaks for each chromosome... INFO @ Mon, 03 Jun 2019 10:03:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.05_peaks.xls INFO @ Mon, 03 Jun 2019 10:03:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.05_peaks.narrowPeak INFO @ Mon, 03 Jun 2019 10:03:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2612514/SRX2612514.05_summits.bed INFO @ Mon, 03 Jun 2019 10:03:22: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (2896 records, 4 fields): 5 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。