Job ID = 5720950 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-04-15T18:56:17 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 ) 2020-04-15T19:04:06 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 ) 2020-04-15T19:06:16 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 ) 2020-04-15T19:06:57 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 ) 2020-04-15T19:43:59 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 ) 2020-04-15T20:13:53 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 ) 2020-04-15T20:15:29 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 ) 2020-04-15T20:22:34 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 ) 2020-04-15T20:39:03 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 ) 2020-04-15T21:02:53 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 ) 2020-04-15T21:04:18 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 ) 2020-04-15T21:23:01 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 91,590,113 reads read : 183,180,226 reads written : 183,180,226 rm: cannot remove ‘[DSE]RR*’: 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: 04:02:23 91590113 reads; of these: 91590113 (100.00%) were paired; of these: 14742289 (16.10%) aligned concordantly 0 times 61502573 (67.15%) aligned concordantly exactly 1 time 15345251 (16.75%) aligned concordantly >1 times ---- 14742289 pairs aligned concordantly 0 times; of these: 3715643 (25.20%) aligned discordantly 1 time ---- 11026646 pairs aligned 0 times concordantly or discordantly; of these: 22053292 mates make up the pairs; of these: 17241610 (78.18%) aligned 0 times 2319526 (10.52%) aligned exactly 1 time 2492156 (11.30%) aligned >1 times 90.59% overall alignment rate Time searching: 04:02:23 Overall time: 04:02:23 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 124 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] 60991737 / 80235038 = 0.7602 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 @ Thu, 16 Apr 2020 11:27:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.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 @ Thu, 16 Apr 2020 11:27:16: #1 read tag files... INFO @ Thu, 16 Apr 2020 11:27:16: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 11:27:26: 1000000 INFO @ Thu, 16 Apr 2020 11:27:36: 2000000 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 @ Thu, 16 Apr 2020 11:27:46: 3000000 INFO @ Thu, 16 Apr 2020 11:27:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.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 @ Thu, 16 Apr 2020 11:27:46: #1 read tag files... INFO @ Thu, 16 Apr 2020 11:27:46: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 11:27:56: 1000000 INFO @ Thu, 16 Apr 2020 11:27:57: 4000000 INFO @ Thu, 16 Apr 2020 11:28:05: 2000000 INFO @ Thu, 16 Apr 2020 11:28:07: 5000000 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 @ Thu, 16 Apr 2020 11:28:15: 3000000 INFO @ Thu, 16 Apr 2020 11:28:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.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 @ Thu, 16 Apr 2020 11:28:16: #1 read tag files... INFO @ Thu, 16 Apr 2020 11:28:16: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 11:28:18: 6000000 INFO @ Thu, 16 Apr 2020 11:28:24: 4000000 INFO @ Thu, 16 Apr 2020 11:28:27: 1000000 INFO @ Thu, 16 Apr 2020 11:28:29: 7000000 INFO @ Thu, 16 Apr 2020 11:28:34: 5000000 INFO @ Thu, 16 Apr 2020 11:28:38: 2000000 INFO @ Thu, 16 Apr 2020 11:28:39: 8000000 INFO @ Thu, 16 Apr 2020 11:28:44: 6000000 INFO @ Thu, 16 Apr 2020 11:28:49: 3000000 INFO @ Thu, 16 Apr 2020 11:28:50: 9000000 INFO @ Thu, 16 Apr 2020 11:28:53: 7000000 INFO @ Thu, 16 Apr 2020 11:28:59: 4000000 INFO @ Thu, 16 Apr 2020 11:29:01: 10000000 INFO @ Thu, 16 Apr 2020 11:29:02: 8000000 INFO @ Thu, 16 Apr 2020 11:29:10: 5000000 INFO @ Thu, 16 Apr 2020 11:29:11: 11000000 INFO @ Thu, 16 Apr 2020 11:29:12: 9000000 INFO @ Thu, 16 Apr 2020 11:29:21: 6000000 INFO @ Thu, 16 Apr 2020 11:29:21: 10000000 INFO @ Thu, 16 Apr 2020 11:29:22: 12000000 INFO @ Thu, 16 Apr 2020 11:29:31: 11000000 INFO @ Thu, 16 Apr 2020 11:29:32: 7000000 INFO @ Thu, 16 Apr 2020 11:29:33: 13000000 INFO @ Thu, 16 Apr 2020 11:29:40: 12000000 INFO @ Thu, 16 Apr 2020 11:29:42: 8000000 INFO @ Thu, 16 Apr 2020 11:29:44: 14000000 INFO @ Thu, 16 Apr 2020 11:29:50: 13000000 INFO @ Thu, 16 Apr 2020 11:29:53: 9000000 INFO @ Thu, 16 Apr 2020 11:29:54: 15000000 INFO @ Thu, 16 Apr 2020 11:30:00: 14000000 INFO @ Thu, 16 Apr 2020 11:30:04: 10000000 INFO @ Thu, 16 Apr 2020 11:30:05: 16000000 INFO @ Thu, 16 Apr 2020 11:30:09: 15000000 INFO @ Thu, 16 Apr 2020 11:30:15: 11000000 INFO @ Thu, 16 Apr 2020 11:30:16: 17000000 INFO @ Thu, 16 Apr 2020 11:30:19: 16000000 INFO @ Thu, 16 Apr 2020 11:30:25: 12000000 INFO @ Thu, 16 Apr 2020 11:30:28: 18000000 INFO @ Thu, 16 Apr 2020 11:30:29: 17000000 INFO @ Thu, 16 Apr 2020 11:30:36: 13000000 INFO @ Thu, 16 Apr 2020 11:30:38: 18000000 INFO @ Thu, 16 Apr 2020 11:30:39: 19000000 INFO @ Thu, 16 Apr 2020 11:30:46: 14000000 INFO @ Thu, 16 Apr 2020 11:30:48: 19000000 INFO @ Thu, 16 Apr 2020 11:30:50: 20000000 INFO @ Thu, 16 Apr 2020 11:30:57: 15000000 INFO @ Thu, 16 Apr 2020 11:30:58: 20000000 INFO @ Thu, 16 Apr 2020 11:31:01: 21000000 INFO @ Thu, 16 Apr 2020 11:31:07: 21000000 INFO @ Thu, 16 Apr 2020 11:31:08: 16000000 INFO @ Thu, 16 Apr 2020 11:31:12: 22000000 INFO @ Thu, 16 Apr 2020 11:31:17: 22000000 INFO @ Thu, 16 Apr 2020 11:31:19: 17000000 INFO @ Thu, 16 Apr 2020 11:31:23: 23000000 INFO @ Thu, 16 Apr 2020 11:31:26: 23000000 INFO @ Thu, 16 Apr 2020 11:31:29: 18000000 INFO @ Thu, 16 Apr 2020 11:31:33: 24000000 INFO @ Thu, 16 Apr 2020 11:31:36: 24000000 INFO @ Thu, 16 Apr 2020 11:31:40: 19000000 INFO @ Thu, 16 Apr 2020 11:31:44: 25000000 INFO @ Thu, 16 Apr 2020 11:31:46: 25000000 INFO @ Thu, 16 Apr 2020 11:31:51: 20000000 INFO @ Thu, 16 Apr 2020 11:31:55: 26000000 INFO @ Thu, 16 Apr 2020 11:31:56: 26000000 INFO @ Thu, 16 Apr 2020 11:32:02: 21000000 INFO @ Thu, 16 Apr 2020 11:32:06: 27000000 INFO @ Thu, 16 Apr 2020 11:32:07: 27000000 INFO @ Thu, 16 Apr 2020 11:32:13: 22000000 INFO @ Thu, 16 Apr 2020 11:32:17: 28000000 INFO @ Thu, 16 Apr 2020 11:32:18: 28000000 INFO @ Thu, 16 Apr 2020 11:32:23: 23000000 INFO @ Thu, 16 Apr 2020 11:32:28: 29000000 INFO @ Thu, 16 Apr 2020 11:32:28: 29000000 INFO @ Thu, 16 Apr 2020 11:32:34: 24000000 INFO @ Thu, 16 Apr 2020 11:32:39: 30000000 INFO @ Thu, 16 Apr 2020 11:32:39: 30000000 INFO @ Thu, 16 Apr 2020 11:32:45: 25000000 INFO @ Thu, 16 Apr 2020 11:32:50: 31000000 INFO @ Thu, 16 Apr 2020 11:32:51: 31000000 INFO @ Thu, 16 Apr 2020 11:32:55: 26000000 INFO @ Thu, 16 Apr 2020 11:33:01: 32000000 INFO @ Thu, 16 Apr 2020 11:33:01: 32000000 INFO @ Thu, 16 Apr 2020 11:33:07: 27000000 INFO @ Thu, 16 Apr 2020 11:33:12: 33000000 INFO @ Thu, 16 Apr 2020 11:33:13: 33000000 INFO @ Thu, 16 Apr 2020 11:33:17: 28000000 INFO @ Thu, 16 Apr 2020 11:33:23: 34000000 INFO @ Thu, 16 Apr 2020 11:33:24: 34000000 INFO @ Thu, 16 Apr 2020 11:33:28: 29000000 INFO @ Thu, 16 Apr 2020 11:33:34: 35000000 INFO @ Thu, 16 Apr 2020 11:33:35: 35000000 INFO @ Thu, 16 Apr 2020 11:33:39: 30000000 INFO @ Thu, 16 Apr 2020 11:33:45: 36000000 INFO @ Thu, 16 Apr 2020 11:33:46: 36000000 INFO @ Thu, 16 Apr 2020 11:33:50: 31000000 INFO @ Thu, 16 Apr 2020 11:33:56: 37000000 INFO @ Thu, 16 Apr 2020 11:33:57: 37000000 INFO @ Thu, 16 Apr 2020 11:34:01: 32000000 INFO @ Thu, 16 Apr 2020 11:34:08: 38000000 INFO @ Thu, 16 Apr 2020 11:34:08: 38000000 INFO @ Thu, 16 Apr 2020 11:34:12: 33000000 INFO @ Thu, 16 Apr 2020 11:34:19: 39000000 INFO @ Thu, 16 Apr 2020 11:34:19: 39000000 INFO @ Thu, 16 Apr 2020 11:34:23: 34000000 INFO @ Thu, 16 Apr 2020 11:34:30: 40000000 INFO @ Thu, 16 Apr 2020 11:34:30: 40000000 INFO @ Thu, 16 Apr 2020 11:34:34: 35000000 INFO @ Thu, 16 Apr 2020 11:34:41: 41000000 INFO @ Thu, 16 Apr 2020 11:34:41: 41000000 INFO @ Thu, 16 Apr 2020 11:34:45: 36000000 INFO @ Thu, 16 Apr 2020 11:34:51: 42000000 INFO @ Thu, 16 Apr 2020 11:34:52: 42000000 INFO @ Thu, 16 Apr 2020 11:34:56: 37000000 INFO @ Thu, 16 Apr 2020 11:35:02: 43000000 INFO @ Thu, 16 Apr 2020 11:35:03: 43000000 INFO @ Thu, 16 Apr 2020 11:35:07: 38000000 INFO @ Thu, 16 Apr 2020 11:35:12: #1 tag size is determined as 151 bps INFO @ Thu, 16 Apr 2020 11:35:12: #1 tag size = 151 INFO @ Thu, 16 Apr 2020 11:35:12: #1 total tags in treatment: 17627158 INFO @ Thu, 16 Apr 2020 11:35:12: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 11:35:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 11:35:13: #1 tags after filtering in treatment: 16120644 INFO @ Thu, 16 Apr 2020 11:35:13: #1 Redundant rate of treatment: 0.09 INFO @ Thu, 16 Apr 2020 11:35:13: #1 finished! INFO @ Thu, 16 Apr 2020 11:35:13: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 11:35:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 11:35:13: #1 tag size is determined as 151 bps INFO @ Thu, 16 Apr 2020 11:35:13: #1 tag size = 151 INFO @ Thu, 16 Apr 2020 11:35:13: #1 total tags in treatment: 17627158 INFO @ Thu, 16 Apr 2020 11:35:13: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 11:35:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 11:35:13: #1 tags after filtering in treatment: 16120644 INFO @ Thu, 16 Apr 2020 11:35:13: #1 Redundant rate of treatment: 0.09 INFO @ Thu, 16 Apr 2020 11:35:13: #1 finished! INFO @ Thu, 16 Apr 2020 11:35:13: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 11:35:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 11:35:14: #2 number of paired peaks: 683 WARNING @ Thu, 16 Apr 2020 11:35:14: Fewer paired peaks (683) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 683 pairs to build model! INFO @ Thu, 16 Apr 2020 11:35:14: start model_add_line... INFO @ Thu, 16 Apr 2020 11:35:14: start X-correlation... INFO @ Thu, 16 Apr 2020 11:35:14: end of X-cor INFO @ Thu, 16 Apr 2020 11:35:14: #2 finished! INFO @ Thu, 16 Apr 2020 11:35:14: #2 predicted fragment length is 234 bps INFO @ Thu, 16 Apr 2020 11:35:14: #2 alternative fragment length(s) may be 234 bps INFO @ Thu, 16 Apr 2020 11:35:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.05_model.r WARNING @ Thu, 16 Apr 2020 11:35:14: #2 Since the d (234) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 11:35:14: #2 You may need to consider one of the other alternative d(s): 234 WARNING @ Thu, 16 Apr 2020 11:35:14: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 11:35:14: #3 Call peaks... INFO @ Thu, 16 Apr 2020 11:35:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 11:35:14: #2 number of paired peaks: 683 WARNING @ Thu, 16 Apr 2020 11:35:14: Fewer paired peaks (683) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 683 pairs to build model! INFO @ Thu, 16 Apr 2020 11:35:14: start model_add_line... INFO @ Thu, 16 Apr 2020 11:35:15: start X-correlation... INFO @ Thu, 16 Apr 2020 11:35:15: end of X-cor INFO @ Thu, 16 Apr 2020 11:35:15: #2 finished! INFO @ Thu, 16 Apr 2020 11:35:15: #2 predicted fragment length is 234 bps INFO @ Thu, 16 Apr 2020 11:35:15: #2 alternative fragment length(s) may be 234 bps INFO @ Thu, 16 Apr 2020 11:35:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.10_model.r WARNING @ Thu, 16 Apr 2020 11:35:15: #2 Since the d (234) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 11:35:15: #2 You may need to consider one of the other alternative d(s): 234 WARNING @ Thu, 16 Apr 2020 11:35:15: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 11:35:15: #3 Call peaks... INFO @ Thu, 16 Apr 2020 11:35:15: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 11:35:18: 39000000 INFO @ Thu, 16 Apr 2020 11:35:28: 40000000 INFO @ Thu, 16 Apr 2020 11:35:38: 41000000 INFO @ Thu, 16 Apr 2020 11:35:47: 42000000 INFO @ Thu, 16 Apr 2020 11:35:49: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 16 Apr 2020 11:35:51: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 11:35:57: 43000000 INFO @ Thu, 16 Apr 2020 11:36:07: #1 tag size is determined as 151 bps INFO @ Thu, 16 Apr 2020 11:36:07: #1 tag size = 151 INFO @ Thu, 16 Apr 2020 11:36:07: #1 total tags in treatment: 17627158 INFO @ Thu, 16 Apr 2020 11:36:07: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 11:36:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 11:36:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.10_peaks.xls INFO @ Thu, 16 Apr 2020 11:36:07: #1 tags after filtering in treatment: 16120644 INFO @ Thu, 16 Apr 2020 11:36:07: #1 Redundant rate of treatment: 0.09 INFO @ Thu, 16 Apr 2020 11:36:07: #1 finished! INFO @ Thu, 16 Apr 2020 11:36:07: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 11:36:07: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 11:36:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.10_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 11:36:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.10_summits.bed INFO @ Thu, 16 Apr 2020 11:36:07: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8260 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 11:36:08: #2 number of paired peaks: 683 WARNING @ Thu, 16 Apr 2020 11:36:08: Fewer paired peaks (683) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 683 pairs to build model! INFO @ Thu, 16 Apr 2020 11:36:08: start model_add_line... INFO @ Thu, 16 Apr 2020 11:36:08: start X-correlation... INFO @ Thu, 16 Apr 2020 11:36:08: end of X-cor INFO @ Thu, 16 Apr 2020 11:36:08: #2 finished! INFO @ Thu, 16 Apr 2020 11:36:08: #2 predicted fragment length is 234 bps INFO @ Thu, 16 Apr 2020 11:36:08: #2 alternative fragment length(s) may be 234 bps INFO @ Thu, 16 Apr 2020 11:36:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.20_model.r WARNING @ Thu, 16 Apr 2020 11:36:08: #2 Since the d (234) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 11:36:08: #2 You may need to consider one of the other alternative d(s): 234 WARNING @ Thu, 16 Apr 2020 11:36:08: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 11:36:08: #3 Call peaks... INFO @ Thu, 16 Apr 2020 11:36:08: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 11:36:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.05_peaks.xls INFO @ Thu, 16 Apr 2020 11:36:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.05_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 11:36:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.05_summits.bed INFO @ Thu, 16 Apr 2020 11:36:09: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (12369 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 11:36:44: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 11:37:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.20_peaks.xls INFO @ Thu, 16 Apr 2020 11:37:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.20_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 11:37:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6386747/SRX6386747.20_summits.bed INFO @ Thu, 16 Apr 2020 11:37:01: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4148 records, 4 fields): 5 millis CompletedMACS2peakCalling BigWig に変換しました。