How To Install openms-tools on Fedora 36

In this tutorial we learn how to install openms-tools in Fedora 36. openms-tools is OpenMS tools

Introduction

In this tutorial we learn how to install openms-tools on Fedora 36.

What is `openms-tools`

Besides TOPP, OpenMS offers a range of other tools. They are not included in TOPP as they are not part of typical analysis pipelines, but they still might be very helpful to you. The UTILS tools are divided into several subgroups - Maintenance - Signal Processing and Preprocessing - File handling - Algorithm evaluation - Peptide identification - Quantitation - Misc - Metabolite identification - Quality control

We can use yum or dnf to install openms-tools on Fedora 36. In this tutorial we discuss both methods but you only need to choose one of method to install openms-tools.

Install openms-tools on Fedora 36 Using dnf

Update yum database with dnf using the following command.

sudo dnf makecache --refresh

After updating yum database, We can install openms-tools using dnf by running the following command:

sudo dnf -y install openms-tools

Install openms-tools on Fedora 36 Using yum

Update yum database with yum using the following command.

sudo yum makecache --refresh

After updating yum database, We can install openms-tools using yum by running the following command:

sudo yum -y install openms-tools

How To Uninstall openms-tools on Fedora 36

To uninstall only the openms-tools package we can use the following command:

sudo dnf remove openms-tools

openms-tools Package Contents on Fedora 36

/usr/bin/AccurateMassSearch
/usr/bin/AssayGeneratorMetabo
/usr/bin/CVInspector
/usr/bin/ClusterMassTraces
/usr/bin/ClusterMassTracesByPrecursor
/usr/bin/CometAdapter
/usr/bin/CruxAdapter
/usr/bin/DatabaseFilter
/usr/bin/DeMeanderize
/usr/bin/DecoyDatabase
/usr/bin/Digestor
/usr/bin/DigestorMotif
/usr/bin/ERPairFinder
/usr/bin/Epifany
/usr/bin/ExternalCalibration
/usr/bin/FFEval
/usr/bin/FeatureFinderMetaboIdent
/usr/bin/FileFilter
/usr/bin/FuzzyDiff
/usr/bin/GNPSExport
/usr/bin/IDDecoyProbability
/usr/bin/IDExtractor
/usr/bin/IDMassAccuracy
/usr/bin/IDSplitter
/usr/bin/INIUpdater
/usr/bin/ImageCreator
/usr/bin/LabeledEval
/usr/bin/MRMPairFinder
/usr/bin/MSFraggerAdapter
/usr/bin/MSSimulator
/usr/bin/MSstatsConverter
/usr/bin/MaRaClusterAdapter
/usr/bin/MapAlignerTreeGuided
/usr/bin/MassCalculator
/usr/bin/MetaboliteAdductDecharger
/usr/bin/MultiplexResolver
/usr/bin/NovorAdapter
/usr/bin/NucleicAcidSearchEngine
/usr/bin/OpenMSDatabasesInfo
/usr/bin/OpenMSInfo
/usr/bin/OpenPepXL
/usr/bin/OpenPepXLLF
/usr/bin/OpenSwathDIAPreScoring
/usr/bin/OpenSwathFileSplitter
/usr/bin/OpenSwathMzMLFileCacher
/usr/bin/OpenSwathRewriteToFeatureXML
/usr/bin/PSMFeatureExtractor
/usr/bin/PhosphoScoring
/usr/bin/ProteomicsLFQ
/usr/bin/QCCalculator
/usr/bin/QCEmbedder
/usr/bin/QCExporter
/usr/bin/QCExtractor
/usr/bin/QCImporter
/usr/bin/QCMerger
/usr/bin/QCShrinker
/usr/bin/QualityControl
/usr/bin/RNADigestor
/usr/bin/RNAMassCalculator
/usr/bin/RNPxlSearch
/usr/bin/RNPxlXICFilter
/usr/bin/RTEvaluation
/usr/bin/SemanticValidator
/usr/bin/SequenceCoverageCalculator
/usr/bin/SiriusAdapter
/usr/bin/SpecLibCreator
/usr/bin/SpectraSTSearchAdapter
/usr/bin/SvmTheoreticalSpectrumGeneratorTrainer
/usr/bin/TICCalculator
/usr/bin/TargetedFileConverter
/usr/bin/TransformationEvaluation
/usr/bin/TriqlerConverter
/usr/bin/XFDR
/usr/bin/XMLValidator
/usr/lib/.build-id
/usr/lib/.build-id/02
/usr/lib/.build-id/02/9e110d50fd2d8588559a9f0fa59c7d1a54594d
/usr/lib/.build-id/08
/usr/lib/.build-id/08/528429e5dfa3cbaf0c33736a48ac90c305e4f4
/usr/lib/.build-id/08/faef93455e9d9e78e00a3dbf9cb2a3567285d7
/usr/lib/.build-id/0d/6348ca09949d56bf1583887a2fa3f111526566
/usr/lib/.build-id/0d/e048ed1a08ffe35252c0607f6bb52bc0d43186
/usr/lib/.build-id/10
/usr/lib/.build-id/10/49593f5f03dd924a90e5737f08ea3e2c54050d
/usr/lib/.build-id/16/2eb3895a29fdbef0c09e3203fc4b71750c11d4
/usr/lib/.build-id/16/6b94994edeaed3877cfe65f39e2c330a8773fc
/usr/lib/.build-id/16/846d7e87d821dc8379b1bdde373e6bbbfe3b0a
/usr/lib/.build-id/24
/usr/lib/.build-id/24/110989253e7ca9267c3975384f517ba55838a5
/usr/lib/.build-id/27
/usr/lib/.build-id/27/9fd3320e23f006ea63b6514d7929e47029b5a2
/usr/lib/.build-id/2c/328f1005cfcdd04c010a9160045e42db7fa36b
/usr/lib/.build-id/38
/usr/lib/.build-id/38/230f23ae5d4b5abec6d76dff2613df4c0a987f
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/usr/lib/.build-id/4d
/usr/lib/.build-id/4d/d57d3feca8479bac739aecf084ee342cbe026e
/usr/lib/.build-id/52/0cc788db5f6cb1d8fe6e0d1effeaa093d049c0
/usr/lib/.build-id/55/a7ca1fd7b71106419a6f177c7e308e206ccf32
/usr/lib/.build-id/58/b1bcd970026d7ac8838df46a6eeebb35a4276e
/usr/lib/.build-id/5c
/usr/lib/.build-id/5c/824a7ebaf368adb396e513e33efc095beca339
/usr/lib/.build-id/5f
/usr/lib/.build-id/5f/328e7c1db948419f0ed02284e465f8b959b2ca
/usr/lib/.build-id/62
/usr/lib/.build-id/62/48b97606575a261f7b7894602ef08473b5b3f7
/usr/lib/.build-id/63
/usr/lib/.build-id/63/a6f3a04935ad06ee63168a530bcd243b4cc6b3
/usr/lib/.build-id/64
/usr/lib/.build-id/64/2789661fbcc9c8b5a84c15a24dacdc027484f6
/usr/lib/.build-id/66
/usr/lib/.build-id/66/1d914cc2c5455adacc5e385675e81c87521bbd
/usr/lib/.build-id/6a
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/usr/lib/.build-id/6c
/usr/lib/.build-id/6c/64025353f3a18a2b7692d9dd1257eb9ac65154
/usr/lib/.build-id/74
/usr/lib/.build-id/74/5405870374312183263589e37d85c7bd21548e
/usr/lib/.build-id/77
/usr/lib/.build-id/77/fbcfddb48b352d67291133b134a58c11af426a
/usr/lib/.build-id/84
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/usr/lib/.build-id/87/1b8bc4c66f63215c9c3895a34bfae59e4cae88
/usr/lib/.build-id/87/771d6e008ecef4aaea02ddff8810b92d59f68a
/usr/lib/.build-id/89
/usr/lib/.build-id/89/d577bca9bf4ed171edd966b45cd7360322a5ea
/usr/lib/.build-id/8c
/usr/lib/.build-id/8c/44347064123303a1d061abb7e77a76b38d2067
/usr/lib/.build-id/8e
/usr/lib/.build-id/8e/210908c61d05e74cf229ae4655459c5796806e
/usr/lib/.build-id/8e/462c5fbb222ecbe724d399e6fab072a7a2e3e4
/usr/lib/.build-id/8e/fb0b4fb17e5a133a0f3afcf3b6f35afef9d729
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/usr/lib/.build-id/91/3fec5a67fb29fcccb68e8d9c50c99e728e1bf4
/usr/lib/.build-id/93/7e166a0481064d8bf71642ac3e80b33a2e7a7b
/usr/lib/.build-id/98/67a5702b2ae9ec087a4c1bf253cdf166779bba
/usr/lib/.build-id/9a/4f0297a8ee70e54321660cfa7c8d5b3c438811
/usr/lib/.build-id/9c
/usr/lib/.build-id/9c/b9074ed556f1bc9645f3a29742b6349b132c36
/usr/lib/.build-id/a4
/usr/lib/.build-id/a4/23bedfd6242bfb8d49cf242a816a46cea68d97
/usr/lib/.build-id/a8/e11a3f023025e5318d942fb009e1d242bb8651
/usr/lib/.build-id/a9
/usr/lib/.build-id/a9/eb5300bdebd898e2de7ba9d63c825b49bfdab9
/usr/lib/.build-id/ab
/usr/lib/.build-id/ab/a0e09439dd2d81d9acfbdaf8a878de71ee6d04
/usr/lib/.build-id/ac/659adcbf023d585cc6735187f78d8f5df0bdc3
/usr/lib/.build-id/ad/43a42960fa326c271d258b4f9a6c4dc2bbe0c2
/usr/lib/.build-id/b1
/usr/lib/.build-id/b1/4b3248497c0a45669a6ae2bc82cba5230d643b
/usr/lib/.build-id/b3
/usr/lib/.build-id/b3/2783aab61854c32c9d07df0600a941632630da
/usr/lib/.build-id/b4/2837a6b0e215565dd54b143fef00cb4369236f
/usr/lib/.build-id/b7
/usr/lib/.build-id/b7/a3986e96998e55b7051cea1a82d2189e001c19
/usr/lib/.build-id/b8/d842f5eec8669bcbadfc6ca62f2b529da37a5e
/usr/lib/.build-id/be
/usr/lib/.build-id/be/24ff45b32fe498babc88a58ab51ac7e7c34c5d
/usr/lib/.build-id/c1
/usr/lib/.build-id/c1/f0379ebfdcaa0a694bc685fd40c9e29fd95988
/usr/lib/.build-id/c5/207967bfc58924041e8d4b1dd127c9cf048986
/usr/lib/.build-id/ce/dce1e7d557d98bd856f1b1b057aeed972a41ea
/usr/lib/.build-id/d4
/usr/lib/.build-id/d4/ad2d2f1d24236f8e9533c7e09fa99d95c6882d
/usr/lib/.build-id/dd/ba88189a16cb4f886298e351f4fda055d9d3c2
/usr/lib/.build-id/de/0543998467527f43156af40d52e7379bbe4238
/usr/lib/.build-id/e0
/usr/lib/.build-id/e0/8001d16a73057471320ce9b58ac47864bb5212
/usr/lib/.build-id/e3
/usr/lib/.build-id/e3/da43daba7d9b107e7a03686ee1c4e474fee88c
/usr/lib/.build-id/e7
/usr/lib/.build-id/e7/e83e17c0659fc123b15e4dfa04eec0e2d68364
/usr/lib/.build-id/f2
/usr/lib/.build-id/f2/2679224437727df020b97cb3ee5dc9420d5fc5
/usr/lib/.build-id/f2/3686e2f6762fbdfce284201f0378a6b4bd5f95
/usr/lib/.build-id/f5
/usr/lib/.build-id/f5/43cbc6ce58cdcd284bf22591f00c1e62cb5c51
/usr/lib/.build-id/f7/2438fd8614559291eb00dc1406d155fb7931bf
/usr/lib/.build-id/fb
/usr/lib/.build-id/fb/05b347dee973a7dbf6e54500cff84454c34a1b
/usr/lib/.build-id/fb/7f8519ebbabf76947a84674e8c91c17dc853a4
/usr/lib/.build-id/fc/de7cab5d21d35fc18d372544b9e26f89d118f6
/usr/lib/.build-id/fd
/usr/lib/.build-id/fd/bf3a571311df5ed3640236e97b44be33c72973
/usr/lib/.build-id/fe
/usr/lib/.build-id/fe/d6f73e4622d707c83134f382efcf368677f6a3

References

openms-tools website

Summary

In this tutorial we learn how to install openms-tools on Fedora 36 using yum and [dnf]((/fedora/36/dnf/).