On 2023-03-05, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #375

QIIME 2

• qiime2__deblur__denoise_16S was updated to 2572fc0f88f2

ChemicalToolBox

• rxdock_rbcavity was updated to e99f861ba68a
• alphafold2 was updated to d00e15139065

BED

• bedtools was updated to a1a923cd89e8

RNA Analysis

• salmon was updated to 6b0ba6de1424
• salmon was updated to b265be7af3db
• salmonquantmerge was updated to 178ebdfe5a7e
• salmonquantmerge was updated to 43658f594542
• salmonquantmerge was updated to 85b3dc9b6830
• cuffdiff was updated to af3e173cad7f
• cuffdiff was updated to d3ae7d9c2202
• cuffnorm was updated to f5b2ee725d34
• cuffquant was updated to 6dc45faebc1d
• cherri_eval was updated to 5dd6b8c4ee1e
• cherri_train was updated to 2f7daa5d2d82
• chira_collapse was updated to 00187b27f5e5
• chira_extract was updated to 0a3107204741
• chira_extract was updated to 6977e9b7143d
• chira_extract was updated to 8b2c1d1556ac
• chira_map was updated to 92dbdc4d2722
• chira_map was updated to e7a9859e0040
• chira_merge was updated to 5db894671434
• chira_merge was updated to b8cb089a8e59
• chira_merge was updated to bd57d16524fe
• chira_quantify was updated to 1bfa8c091530
• chira_quantify was updated to 7fb3fc24be0e
• chira_quantify was updated to 8e3da3c5b851
• deseq2 was updated to 6f91b8ce6e07
• deseq2 was updated to 71bacea10eee
• deseq2 was updated to 9a616afdbda5
• deseq2 was updated to a416957ee305
• deseq2 was updated to de44f8eff84a
• deseq2 was updated to e5c8afac22a7
• dexseq was updated to 9fd8b69e6e68
• edger was updated to fb9b9f0f2f06
• featurecounts was updated to 6f66ae7c5f7a
• featurecounts was updated to ce44c6f2ba38
• feelnc was updated to 095162ba8e90
• feelnc was updated to 17a77824c8e4
• heinz was updated to 704c401e0afb
• heinz was updated to e41ec5af7472
• idr was updated to d3ebbf39b1c5
• kallisto_pseudo was updated to 2953303df011
• kallisto_quant was updated to 60f888039fb2
• migmap was updated to fbbe507e692b
• qualimap_counts was updated to e020be4f281b
• scpipe was updated to 3ffca09599ca
• scpipe was updated to 5c4bca9dd4a2
• seurat was updated to 321bdd834266
• seurat was updated to 4c139a9415d7
• seurat was updated to 8d8412d35247
• slamdunk was updated to 24657d5edede
• stringtie was updated to 333a6e13b622
• trinity was updated to 26d5493b20b6
• trinity was updated to 3772d9a10f27
• trinity was updated to 5b60313a6ce7
• trinity was updated to d5e8807a407d
• trinity_abundance_estimates_to_matrix was updated to 2e21a7c28b38
• trinity_abundance_estimates_to_matrix was updated to 442e3696c634
• trinity_abundance_estimates_to_matrix was updated to 59fff1388bc2
• trinity_abundance_estimates_to_matrix was updated to 81a4697677e7
• trinity_abundance_estimates_to_matrix was updated to cdde9062b49c
• trinity_align_and_estimate_abundance was updated to 00719b8004c9
• trinity_align_and_estimate_abundance was updated to 6c20d62180af
• trinity_align_and_estimate_abundance was updated to 6d6b72d14170
• trinity_align_and_estimate_abundance was updated to 893655fa55f9
• trinity_contig_exn50_statistic was updated to 03ca5ddc37a9
• trinity_contig_exn50_statistic was updated to 34840e9c79b0
• trinity_contig_exn50_statistic was updated to 62b05e565a45
• trinity_contig_exn50_statistic was updated to b1e9a0355166
• trinity_contig_exn50_statistic was updated to beafdd47f8cf
• trinity_filter_low_expr_transcripts was updated to 1007cdb58d91
• trinity_filter_low_expr_transcripts was updated to 17101429bf0d
• trinity_filter_low_expr_transcripts was updated to 42c5172815f7
• trinity_filter_low_expr_transcripts was updated to a5ec0e79a93a
• trinity_filter_low_expr_transcripts was updated to b10270739c1b
• trinity_run_de_analysis was updated to 3bff7c3cf63c
• trinity_run_de_analysis was updated to ab87da55fe61
• trinity_run_de_analysis was updated to bbbb39ad9a7e
• trinity_run_de_analysis was updated to f3924bd07cba
• trinity_run_de_analysis was updated to fd588e138aa6
• trinity_super_transcripts was updated to 18a069ea4b96
• trinity_super_transcripts was updated to 29472bde8854
• trinity_super_transcripts was updated to 6f480aee5877
• trinity_super_transcripts was updated to 9c545f1c1a4e
• trinity_super_transcripts was updated to b34de8dc0f64

Proteomics

• openms_openpepxl was updated to a2a842b00f9c
• openms_percolatoradapter was updated to 0fc9ae55bcfc
• openms_percolatoradapter was updated to e7881a82b56d
• openms_xfdr was updated to 81402a5e4173
• openms_xfdr was updated to 9a6e3bb0f358
• proteinortho_grab_proteins was updated to d348c3a151d9

Assembly

• bionano_scaffold was updated to 3371c5bdc17a
• quast was updated to 72472698a2df

Annotation

• bakta was updated to 865ece5ca178
• busco was updated to e824f5d958d0
• mitos was updated to c7553ba39670
• mitos2 was updated to 033755194fe9
• plasmidfinder was updated to 7075b7a5441b

Metagenomic Analysis

• customize_metaphlan_database was updated to 46fc97bb98f9
• extract_metaphlan_database was updated to 5eccd3d336a3
• merge_metaphlan_tables was updated to e073891b2afc
• metaphlan was updated to 2131d7dca455

None

• data_manager_bakta was updated to bb463043c93e
• data_manager_diamond_database_builder was updated to 4a08b7b76b78

Mothur

• mothur_rarefaction_shared was updated to 419266a5e29e

Phylogenetics

• hyphy_absrel was updated to 841557158611
• hyphy_annotate was updated to 91cf1290ba6f
• hyphy_bgm was updated to 35723f87964d
• hyphy_busted was updated to e908c4003bd8
• hyphy_cfel was updated to 6960dd62c983
• hyphy_conv was updated to beeeed9665ea
• hyphy_fade was updated to cf51d3630757
• hyphy_fel was updated to ec783806a5c3
• hyphy_fubar was updated to 1b893cdead55
• hyphy_gard was updated to 5b777002c2de
• hyphy_gard was updated to 83f146502c0f
• hyphy_gard was updated to 8c388fd08c09
• hyphy_gard was updated to b8a7f604708e
• hyphy_gard was updated to bff9a82d630d
• hyphy_meme was updated to 0052303cfa41
• hyphy_meme was updated to 33040ebb30c6
• hyphy_meme was updated to 45a2366d777e
• hyphy_meme was updated to 5d8389d684bf
• hyphy_meme was updated to 5fd8dc04d6af
• hyphy_meme was updated to a114682b2788
• hyphy_meme was updated to d0f087aae1a3
• hyphy_meme was updated to d653a76f16ee
• hyphy_meme was updated to e0763df98352
• hyphy_prime was updated to 6d29207a32c5
• hyphy_prime was updated to 9d83d1ab0330
• hyphy_prime was updated to b044a346c00d
• hyphy_prime was updated to b3b775a4ae1f
• hyphy_prime was updated to d8092fd69175
• hyphy_prime was updated to dc774be95f6c
• hyphy_prime was updated to e2942cd87117
• hyphy_prime was updated to f207757f9ca2
• hyphy_relax was updated to 134d46bd47dd
• hyphy_relax was updated to 3415a580926d
• hyphy_relax was updated to 4e9485eb5e9d
• hyphy_relax was updated to 5eb9d7217640
• hyphy_relax was updated to a4c5dc437558
• hyphy_relax was updated to be29e2137d32
• hyphy_relax was updated to d62d58407443
• hyphy_relax was updated to ed0f10a1db94
• hyphy_slac was updated to 0c6724c345d9
• hyphy_slac was updated to 24742f335426
• hyphy_slac was updated to 2753a5c7597a
• hyphy_slac was updated to 365e33adf3a4
• hyphy_slac was updated to 5f54f026fbe3
• hyphy_slac was updated to 67d3fc9ae1c3
• hyphy_slac was updated to 82c77ba28d70
• hyphy_slac was updated to 8522e7cc4fb4
• hyphy_slac was updated to c010cbc8ff3a
• hyphy_sm19 was updated to 00b4cf477625
• hyphy_sm19 was updated to 23b041c0d7d2
• hyphy_sm19 was updated to 36e40d93e8a3
• hyphy_sm19 was updated to 40e9160dbbbb
• hyphy_sm19 was updated to 50c12e254867
• hyphy_sm19 was updated to 86e10267b4cc
• hyphy_sm19 was updated to 87dd1c1c84d1
• hyphy_sm19 was updated to a809f93e7e6d
• hyphy_sm19 was updated to a96a307afb40
• hyphy_strike_ambigs was updated to 193dcaef2169
• hyphy_strike_ambigs was updated to 31e7f5a25db3
• hyphy_strike_ambigs was updated to 4bf743518e41
• hyphy_strike_ambigs was updated to 4e3212e05a8f
• hyphy_strike_ambigs was updated to 50554f806e16
• hyphy_strike_ambigs was updated to 650bcc9d3f36
• hyphy_strike_ambigs was updated to 79dc560d8ea3
• hyphy_strike_ambigs was updated to 7b214c69e387
• hyphy_summary was updated to 11dd1a96ffe9
• hyphy_summary was updated to 11fc6218365d
• hyphy_summary was updated to 4e7f1a7d18be
• hyphy_summary was updated to 81b23515db14
• hyphy_summary was updated to bd90215b7d15
• nextalign was updated to d1dd7d1b07f6
• nextclade was updated to 07ab9bd68a02
• nextclade was updated to 0c46b95d60c3
• pangolin was updated to 0ec813ad2910
• pangolin was updated to 3a656a4a43ed
• pangolin was updated to 77402759b866
• pangolin was updated to debfccc4d65b
• pangolin was updated to fe3e8506112c
• phyml was updated to 850e213bee26
• raxml was updated to 14eb2acf30e3
• usher was updated to 335665e15630
• usher was updated to 524cb8f7a69a
• usher_matutils was updated to 79e2ee4e6ebb

Picard

• picard was updated to 2a17c789e0a5
• picard was updated to 6f9c0884a3e7

Quality Control

• multiqc was updated to 161f4383df15

RAD-seq

• stacks_assembleperead was updated to 0c741f364d18
• stacks_assembleperead was updated to b08cd32d03ad
• stacks_cstacks was updated to dab92afa0c98
• stacks_denovomap was updated to 2b1dd7ab69f7
• stacks_denovomap was updated to eb1e95f88e96
• stacks_genotypes was updated to 00f4a4e553ae
• stacks_genotypes was updated to 5af94af9ec8f
• stacks_procrad was updated to 57910d476be9
• stacks_procrad was updated to 8fe258d72ff3
• stacks_pstacks was updated to 7ebc7d229deb
• stacks_pstacks was updated to ede5223bc7f1
• stacks_refmap was updated to 4ee074ca88fb
• stacks_refmap was updated to 7c42e6768c41
• stacks_rxstacks was updated to 2360d8cf42f7
• stacks_rxstacks was updated to 9d0ac63dcfcd
• stacks_sstacks was updated to 95e37a28704b
• stacks_sstacks was updated to e38d181d4e72
• stacks_ustacks was updated to b6de94f2edc0
• stacks_ustacks was updated to e5c97f09fe06

SAM/BAM

• bamtools_filter was updated to 4fe8a75334c8
• bamtools_filter was updated to bd735cae4ce6
• samtool_filter2 was updated to a7add3e93cc5
• samtool_filter2 was updated to b7aa423007bf
• samtools_calmd was updated to 3d873744df7e
• samtools_calmd was updated to c147e3a10573
• samtools_calmd was updated to e65c2cd0964c
• samtools_flagstat was updated to 4e404acfafa6
• samtools_idxstats was updated to 04d5581db1f5
• samtools_mpileup was updated to 111f83918fe6
• samtools_mpileup was updated to fa7ad9b89f4a
• samtools_phase was updated to 6166013090c0
• samtools_rmdup was updated to 9129584416e2
• samtools_stats was updated to 47035d167365
• samtools_stats was updated to 793ad847121d
• samtools_stats was updated to e28839a4b932
• ngsutils_bam_filter was updated to 49bf71fbc574
• ngsutils_bam_filter was updated to aecfe10118ed
• qualimap_multi_bamqc was updated to 16beb83e370c
• samtools_markdup was updated to d0a568e1904b
• samtools_merge was updated to 8890e2d4c068
• samtools_view was updated to df20f1fd453f
• tag_pileup_frequency was updated to b7d7ae3963aa

Send Data

• ena_upload was updated to e1b3b37aa69f