seqtrimnext-2.0.68

https://rubygems.org

id: 238960

number: 2.0.68

platform: ruby

spec_sha256: 0db7866ec8eb77525bc6e26534aa7adad86dec321dc81ae13ba34b7b7eb0ee46

sha256: 3e75eeb810c9119a1b92820bb05dccf87e1d6ac8702d733d1f388fe818726f5e

created_at: 2024-05-13 08:17:07 UTC

updated_at: 2024-06-07 04:15:56 UTC

position: 0

version_data_entries_count: 132

uploaded_at: 2016-12-14 05:29:56 UTC

indexed: true

has_extensions:

extensions:

Gem size: 87.5 KB

Version Data Entries

Total: 132

Unpacked size: 370 KB

Full Name	Mode	Size	SHA
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Gemfile	100644	96 Bytes	3166b148af2997d660138cb35047e9b9d8d16ada3db42b2f783dce4a3e87b6d0
LICENSE.txt	100644	1.04 KB	83030efa62562b2e106cecec69e41e6e019d7de38dadbf5e563057d3b9abb23a
README.md	100644	11.4 KB	e6474c3cbf50fd7866103a18fa5337ff64d24be15633588a6de7da9516c7132f
Rakefile	100644	133 Bytes	59369b06ec32a43c998a760e4e745c07f2785854fe454a601b639addf4c3db32
bin/create_graphs.rb	100755	881 Bytes	059d4a36e0c28c37a5d35e629c7902924bd24d8f592fbc42027ebd24a03d2c1c
bin/extract_seqs.rb	100755	788 Bytes	beacbe318cce4db639b30239d1336e77ae303ad822df70123f4bf66e63d02baa
bin/extract_seqs_from_fasta.rb	100755	937 Bytes	a40a5f5b419616ddbdd71a4e07f4071875e8dcec37824d6f51e36bc28199cb1e
bin/extract_seqs_from_fastq.rb	100755	696 Bytes	5d369dc36f9ea7a525a7e8c7a4cd604fd66aa26d4cf33ee4f6fec208a610fe91
bin/fasta2fastq.rb	100755	652 Bytes	416876b8c2a0d7e0ebe9efebbfa8e2fa29cbc2253022cc29fefad2961b9608ba
bin/fastq2fasta.rb	100755	506 Bytes	0dccaf797303144b16e952f4c8ee3ff0354fd22c5ecb1d42b29714b3aaae4158
bin/filter_database.rb	100755	705 Bytes	83b4de2e9a13c79618e920598b2cc001707a84aebb761e190dd5ff588548a0b5
bin/gen_qual.rb	100755	579 Bytes	a597d14a09ad830d3f2b22cbc7439be640efe351944584e134d5a27bf9013e98
bin/get_seq.rb	100755	577 Bytes	157ecb7a25555aea9190ba49391e5c3bbdf2f29de877fdcda0fc3a6f28af4671
bin/group_by_range.rb	100755	155 Bytes	199231c91cc9cfc94dd9aa309b4c678859fbd1d47eae5636e827966284342e5b
bin/join_big_illumina_paired.sh	100755	3.3 KB	650098225a605fa0a49de48a133b5c8338bf4b411dca52bca214541aac28ab80
bin/join_ilumina_paired.rb	100755	2.26 KB	a6fc7149c4d1e67d343b268ed90fb42fcfd33ac17e771d5c89357bcf7c280b9e
bin/parse_amplicons.rb	100755	2.04 KB	e8ed262533cb3e2052038ce375d51fe4959c3b98f051fd66ade295a3af4305c9
bin/parse_json_results.rb	100755	1.12 KB	5b68b7ea5cb6dc581334457e1d9b59779ba0af91134eecd938d92e2a861b0308
bin/parse_params.rb	100755	1.49 KB	0694674936f6ce05acfea350b4f3d1c0ea3553f0ba788584abe7b959df544d9b
bin/resume_clusters.rb	100755	608 Bytes	47b5609cbbfb2a45df45233b930268f5695005c5c12aa82ff356451a9137ad63
bin/resume_execution_times.rb	100664	1.38 KB	554d3bfbb4586cd3b7e243ef0d638cb76dcdcf73ba2532e9c4df7cc5386ee41f
bin/resume_rejected.rb	100755	536 Bytes	38c93c5780654b07664654aebe3fd9fee960e6a315f7f70e1fa8b0dcad75d2a6
bin/resume_stn_contaminants.rb	100664	803 Bytes	1b4f640932fb214b2d58ed4c6e9a963ba50a55d6d5e21703960ef048c6384242
bin/resume_stn_stats.rb	100755	1.11 KB	fbe405020bca953b60cd70f91cbda44b64a329ba2c8f379ce9f3a626117ab32f
bin/reverse_paired.rb	100755	674 Bytes	331c7deb28603686800c8073d8bf67369592a0d99a84ddb10691f8fdf172d6ba
bin/seqtrimnext	100755	14.2 KB	bb17a305db1e4e9b264ea72f4fefaf2722f58dac2fb6be9b16810973d9636c9c
bin/split_fasta.rb	100755	600 Bytes	5d8d516829da02995c0a68f39f7c1abf772d5a208b6711ef9d91ac35effe59d2
bin/split_fastq.rb	100755	696 Bytes	fadab2337631d9f03af48242a868c1da9a7139644f69f8712658ecd34eb6950c
bin/split_ilumina_paired.rb	100755	1.21 KB	0efde893f4e263d33341a411ca5b02fcc987a569d9415ca1a122817ad45b0a09
bin/split_paired.rb	100755	1.27 KB	21a2ad25f272e965a9665ba22d5c77232865ca5923bace9a7ca6cae8b9cbdc87
lib/seqtrimnext.rb	100644	659 Bytes	5c7646cdddc1864fb6d848342cdc791ac7ca9908d7495163fee42bcfa8b7c683
lib/seqtrimnext/actions/action_ab_adapter.rb	100644	780 Bytes	d6558e8ea5e78db24f818c8906fbc0a2329c7e970fe311a4a49c97443c83ec3f
lib/seqtrimnext/actions/action_ab_far_adapter.rb	100644	782 Bytes	3e57334aa95189ecf4cf30eed1d967a61338162981e4b62eefd29aeba6ad23b0
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lib/seqtrimnext/actions/action_ignore_repeated.rb	100644	570 Bytes	fcdae96fb410b08c6d1bf40a8c1c9da7b89cb924ddb96a93899ed40fb4806f3a
lib/seqtrimnext/actions/action_indetermination.rb	100644	776 Bytes	3ce9171df7e27f6338f7b382d917114656cce1b582aa5c5010db5febef2d23d1
lib/seqtrimnext/actions/action_induced_low_complexity.rb	100644	680 Bytes	cc1b4c507677c9c755caf675ef5cbc19953101a2932ee6356d0e4ea25be9322a
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lib/seqtrimnext/actions/action_left_primer.rb	100644	227 Bytes	d80fe5d487891751ebc00cecfe95405306a2c5a37299145a5c65c9602b4b7377
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lib/seqtrimnext/actions/action_low_complexity.rb	100644	699 Bytes	a8c2ecb3ab9a9bc5b378acb2a00bea3e1b61fde67f02c77ac0b358b6fcaab026
lib/seqtrimnext/actions/action_low_high_size.rb	100644	830 Bytes	85d6369716857d75e678c3677ae5e614938d23959292aecc7990d1fe1e910498
lib/seqtrimnext/actions/action_low_quality.rb	100644	1.08 KB	ab4d9b5e216839dfdcd4ea3de3a65c58743280affa236c149302516cffe489be
lib/seqtrimnext/actions/action_mid.rb	100644	767 Bytes	7cf53229f9df32babd2179e3a92fa945d97dba35f6ccd3605300efe473ede048
lib/seqtrimnext/actions/action_middle_adapter.rb	100644	732 Bytes	70dfe2795673991ebe6c8f5b402f8d84cae1ffab6b75b72030e0f2c313902433
lib/seqtrimnext/actions/action_multiple_linker.rb	100644	640 Bytes	9eeac7234fa235117805bf336d8aca7a69c605aad8ac8c5121d278a3ec651286
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lib/seqtrimnext/actions/action_rem_adit_artifacts.rb	100644	786 Bytes	0958d3517d7f4d4114756b50b1f10f964afce5fcf1b4b6da113d722835e1f3c4
lib/seqtrimnext/actions/action_right_adapter.rb	100644	731 Bytes	84309575436bd515dc2adb38b87fa3c1ad30a8906a9d582c6bf5ffd2ede08c91
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lib/seqtrimnext/actions/action_trim.rb	100664	521 Bytes	5dc3e01df7b3e66230acf3f39c7ede228a8e37c4f48b85082e98039e0d7e538b
lib/seqtrimnext/plugins/plugin_key.rb	100644	1.65 KB	21c12aed298f34599d6c076ec1a4a3544b2f698d373762578d0dbcb42ecff9d3
lib/seqtrimnext/actions/action_unexpected_poly_t.rb	100644	675 Bytes	b469c8e9a8af42f73a64d1c988007abccde93841200e805f0f822a560031b0e6
lib/seqtrimnext/actions/action_unexpected_vector.rb	100644	768 Bytes	d2a9954859cb61f29c1631a2225ea7b27edeffec35d0da119ded060fa0bc079e
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lib/seqtrimnext/actions/action_vectors.rb	100644	759 Bytes	9b465bb6c9aea667d6ff8ba0771956faa1bac5fda8decc5d00de76af3e2de538
lib/seqtrimnext/actions/seqtrim_action.rb	100644	2.95 KB	3aebdda3958609d19af92407cd1104e2a1d073b55da99d76232f6868fb78cc3b
lib/seqtrimnext/classes/action_manager.rb	100644	1.44 KB	bfa3af4fa04965e04625a9827becf2436008774f905cda58f0393c1299e6829c
lib/seqtrimnext/classes/em_classes/seqtrim_work_manager.rb	100644	8.69 KB	59e8e6de1d9ce9309be061c3043fd11bf57e5ad3f7334e439da18394748d8de5
lib/seqtrimnext/classes/em_classes/seqtrim_worker.rb	100644	11.4 KB	52d0208c54266a36d2e21b471854df331d785d37b6122f23f766c038497ecd65
lib/seqtrimnext/classes/extract_stats.rb	100644	6.33 KB	88cffed81fa7e14e49ca847307d49ed6733505bb81fb191119ba55546a6ffd2f
lib/seqtrimnext/classes/gnu_plot_graph.rb	100644	3.79 KB	6f9c155a17990b8190727cd245642493f850ee6939f5365ce6272a51641efddb
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lib/seqtrimnext/classes/install_database.rb	100644	1.06 KB	16a4fefccf37afe0d98cec606310e22a066a137818b6ae320bdf7012ef5431f7
lib/seqtrimnext/classes/install_requirements.rb	100644	3.22 KB	09fa16638eb47744e4c39b4719cc4011a5508fa0aabf21d1ba189b7debcdc38d
lib/seqtrimnext/classes/list_db.rb	100644	800 Bytes	4ed4cd4f7ba6479c32d9fdc17a47f853bd1f9cf93dc37ad78be52b6768c4862e
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lib/seqtrimnext/classes/one_blast.rb	100644	587 Bytes	e211e71d1d01463b256d784e3802b1932a4278fe0e2b393ff0a4b82dd4c74f52
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lib/seqtrimnext/classes/scbi_stats.rb	100644	1009 Bytes	7c45baf3430284f4616b02160033d20e2fcf46df1d6de5a40539221115c634de
lib/seqtrimnext/classes/seqtrim.rb	100644	11.4 KB	e603abe705e08ab24c0b9f2dd9f376d897cd6ab7dd544f3cdf7a467ccc722867
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lib/seqtrimnext/classes/sequence_group.rb	100644	1.29 KB	b91e8379b746e20026e686a3ea445a3147edd47a30423188261c8fac58f9111d
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lib/seqtrimnext/plugins/plugin_ab_adapters.rb	100644	7.67 KB	6506ceeeba3c795c098dfe175f04feb935d0376f771ce7a1681a86540c83a9b4
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lib/seqtrimnext/plugins/plugin_amplicons.rb	100644	5.72 KB	caa187880faa96cccd5bf983a0f0832b81697a55d7a630d62a80c2ebc8f8eec3
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lib/seqtrimnext/plugins/plugin_low_high_size.rb	100644	2.04 KB	b420292c4b732558defbc6a3da3850207f2b6cd9d0100cdf085e31e9578dbcc4
lib/seqtrimnext/plugins/plugin_low_quality.rb	100644	5.74 KB	cbba3957fad54e841b51d3cd49624ecd06ec7d63e5ca107393f615128d59557f
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lib/seqtrimnext/plugins/plugin_sanger_adapters.rb	100644	6.44 KB	e848a6e029a4611fed3a29a87744626e558d60a12580a04ba92906c0c65739e5
lib/seqtrimnext/plugins/plugin_short_insert.rb	100644	7.49 KB	211052529a9f5b6147b839047317337e3af748604bcad7ccacc21f983717d220
lib/seqtrimnext/plugins/plugin_size_trim.rb	100664	1.49 KB	044baf41a290cc7566bb547d908ecff0240ef93ac88d4eaee42cca95527e9ccc
lib/seqtrimnext/plugins/plugin_user_contaminants.rb	100644	5.53 KB	121ad07d01af8d93f481a220fc9a050b5e0151840845955917259e939b080f22
lib/seqtrimnext/plugins/plugin_vectors.rb	100644	8 KB	770a2323d44abc53c97139b10a99cca3e30852b1a77931640bc6d6f916f68cdd
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lib/seqtrimnext/plugins_old/plugin_low_quality_old.rb	100644	13.7 KB	3099efbff4b0b17880669633a6e2d25138b02551e20fa32de3bc600c5443c16b
lib/seqtrimnext/plugins_old/plugin_rem_adit_artifacts.rb	100644	5.65 KB	5b534f5131014eda5ddcafd56f653861946fa4cfd716b76a7ff757566d0d8541
lib/seqtrimnext/templates/amplicons.txt	100644	1.29 KB	2cafa7bdc2484bb4ed5604cd747a5eff222ddeb2aca3ac295f376e4501962c32
lib/seqtrimnext/templates/genomics_454.txt	100644	1.23 KB	ebcdcc9a51941b30483c9b8e043890378d87583534b9a42859a40291ccd68cad
lib/seqtrimnext/templates/genomics_454_with_paired.txt	100644	1.39 KB	9f376ffe2bf7b4a8b986af692872e18d7048409200bbcf6874a94979e784738c
lib/seqtrimnext/templates/genomics_short_reads.txt	100644	1.4 KB	fbc99cb2b226b08f722449feb34ebd19fe4e96871404a5a20531a6941c61a339
lib/seqtrimnext/templates/genomics_short_reads_2.txt	100644	1.48 KB	025c099818e1a729c31d02dbe113a0aaca3b76bc37ae9a6b91eeb11708f213ca
lib/seqtrimnext/templates/only_quality.txt	100644	645 Bytes	4206c02ad9b785b5e9179b6a500ced10f582163ff4b2553a49ac5bb070f1e61d
lib/seqtrimnext/templates/sanger.txt	100644	1.08 KB	fe14d13a6151698da9859081024d65205657a333238ef95dc5d9147f6677cde1
lib/seqtrimnext/templates/transcriptomics_454.txt	100644	1.63 KB	e1a8671924b051b8edf266962042500dc37c3bb40f164e889457e0ba48a043ca
lib/seqtrimnext/templates/transcriptomics_454_plants.txt	100644	1.76 KB	d2ac23b3d678b629f7c4e899b02642b64ae7a428d7c6e1d67f97266e6e55cfe0
lib/seqtrimnext/templates/transcriptomics_short_reads.txt	100644	1.6 KB	b8c09825a588d130bf21d4a550b7f4ef1509efe322ff12973537f721572163c2
lib/seqtrimnext/utils/extract_samples.rb	100644	1.23 KB	743bae369aab57a4b3cf61d397ed03ec498706d5f6c02b5f9fa002a7ef155ccf
lib/seqtrimnext/utils/fasta2xml.rb	100755	1.48 KB	e959f2323640413e45f545b5c78fb937c2b6672000c948886bcf024a434e9382
lib/seqtrimnext/utils/global_match.rb	100644	1.12 KB	eda69bf0400b01cb4de839a533a8635c7efcedcd0d5754656a8fe3369c2f82f8
lib/seqtrimnext/utils/hash_stats.rb	100644	622 Bytes	7854663dc1d87c15d38b9ebf6590e860826c1c2c110c85b6b4af2e3360b9b07a
lib/seqtrimnext/utils/json_utils.rb	100755	840 Bytes	d7797ad57aa054736c4411c4138d3d654dacf9f3fbaea0e3fb22faab50a49d8a
lib/seqtrimnext/utils/load_fasta_names_in_hash.rb	100644	722 Bytes	b9aa1202ef006800c85101f31822a8fecf622f1342e63410fe930ee95708b446
lib/seqtrimnext/utils/load_qual_in_hash.rb	100644	717 Bytes	9934588078f725849e70d675a92b787bc08b5b690ad6cc858fd7c4cba536d121
lib/seqtrimnext/utils/recover_mid.rb	100644	2.27 KB	efc1e7c59622b802f1bc3d76a516739d8ab2ca84f5b339bb17cc2dbb35320e38
lib/seqtrimnext/utils/string_utils.rb	100644	1015 Bytes	ea28310ee44daf38d063cce68c526861a5b139402d4317a1ed687ca0e8af485b
lib/seqtrimnext/version.rb	100644	72 Bytes	69aafc24ba2064d6d7837a78a7f8664ecc6e68a6b01da0580942fc51ee956a71
seqtrimnext.gemspec	100644	1.54 KB	d4245c7a1ec16c5f5e6e8112fed4864972673f42dc114cb73ebe50d6ccacadd4