# Fasta\_mothur.eft **URL:** \ **Category:** Integrating mothur with other programs\ **Created:** [October 2, 2017, 7:20am UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409 "2017-10-02T07:20:25Z")\ **Posts on this page:** 10\ **Page:** 1
**Author:** ![cbharder](https://avatars.discourse-cdn.com/v4/letter/c/2bfe46/32.png) [@cbharder](https://forum.mothur.org/u/cbharder)\ **Post date:** [October 2, 2017, 7:20am UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/1 "2017-10-02T07:20:25Z")
I have trouble using the fasta\_mothur.eft format converter when I try to work with the readme for silva 128 ([http://blog.mothur.org/2017/03/22/SILVA-v128-reference-files/](http://blog.mothur.org/2017/03/22/SILVA-v128-reference-files/)). I have created it with a content and format just like this: > SUFFIX fasta > BEGIN > > > _(acc)._(name)\t\*(align\_ident\_slv)\t\*(tax\_slv); > > \*(|export\_sequence) and stored it in my arb/lib/exports folder, but when I open up ARB, the fasta\_mothur.eft file just not among the format outputs I can choose from. I dontr know if the problem is with the installation. I run arb on a Mac 10.10 Yosemite, and I installed it via MacPorts. Dr. Schloss´ quoted page above tells me to store the fasta\_mothur.eft in the “/opt/local/share/arb/lib/export/” folder, however, when I install arb I get this filepath: > /Users/[my\_username]/arb/arbsrc\_15220/lib/export/ When I call the programme in a unix window, I receive these notices: > Ignoring set ARBHOME ‘/opt/local/share/arb’ (overridden by explicit call of ‘/opt/local/bin/arb’) > Using ARBHOME=‘/opt/local/share/arb’ > Using properties from /Users/[my\_username]/.arb\_prop > Please wait while the program ARB is starting … > Waiting for ‘/Users/chribhar/.arb\_tmp/sockets/arb\_launcher.13651’… > [arb\_launcher[0]: Starting ‘arb\_ntree SSURef\_NR99\_128\_SILVA\_07\_09\_16\_opt.arb’…] > Using properties from ‘/opt/local/share/arb/lib/arb\_default/ntree.arb’ > Using properties from ‘/opt/local/share/arb/lib/arb\_default/status.arb’ > ARB: Loading ‘ntree.arb’ > ARB: Loading ‘/opt/local/share/arb/lib/arb\_default/ntree.arb’ done > ARB: ARB: Loading ‘SSURef\_NR99\_128\_SILVA\_07\_09\_16\_opt.arb’ > ARB: ARB: no FastLoad File ‘SSURef\_NR99\_128\_SILVA\_07\_09\_16\_opt.ARM’ found =\> loading entire DB > ARB: ARB: Loading ‘SSURef\_NR99\_128\_SILVA\_07\_09\_16\_opt.arb’ done Any advise would be greatly appreciated. Best, Christoffer ---
**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\ **Post date:** [October 2, 2017, 12:04pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/2 "2017-10-02T12:04:12Z")
Can you find the fasta.eft file in your file directory? Is the fasta\_mothur.eft file in that directory? If you do ```nohighlight ls $ARBHOME ``` at a prompt what do you get? Pat ---
**Author:** ![cbharder](https://avatars.discourse-cdn.com/v4/letter/c/2bfe46/32.png) [@cbharder](https://forum.mothur.org/u/cbharder)\ **Post date:** [October 2, 2017, 9:02pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/3 "2017-10-02T21:02:53Z")
I can find both the fasta\_mothur.eft and the fasta.eft in the arb/arbsrc\_15220/lib/export folder where I installed the fasta\_mothur.eft, it just simply does not appear to be the same folder in which ARB is looking. prompting ls $ARBHOME in the arb export folder gives me this: bio91157:export chribhar$ ls $ARBHOME GDEHELP SH demo.arb PERL\_SCRIPTS bin lib ---
**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\ **Post date:** [October 5, 2017, 11:20am UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/4 "2017-10-05T11:20:11Z")
If you do ```nohighlight ls -lth arb/arbsrc_15220/lib/export ``` what do you get? ---
**Author:** ![MarwaTawfik](https://avatars.discourse-cdn.com/v4/letter/m/ee59a6/32.png) [@MarwaTawfik](https://forum.mothur.org/u/MarwaTawfik)\ **Post date:** [September 11, 2021, 5:20pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/5 "2021-09-11T17:20:04Z")
Where should I put this command? I am using the arb in conda environment and it worked well till this step. When I tried to export from arb I couldn’t find extension fasta\_mothur.eft? how I can create that using the mentioned command in [README for the SILVA v138.1 reference files](https://mothur.org/blog/2021/SILVA-v138_1-reference-files/) ```auto SUFFIX fasta BEGIN >*(acc).*(name)\t*(align_ident_slv)\t*(tax_slv); *(|export_sequence) ``` ![image](https://canada1.discourse-cdn.com/flex036/uploads/mothur/original/1X/20d0470a9943a8af29fb50760aecbcd715ae1529.png) ---
**Author:** ![MarwaTawfik](https://avatars.discourse-cdn.com/v4/letter/m/ee59a6/32.png) [@MarwaTawfik](https://forum.mothur.org/u/MarwaTawfik)\ **Post date:** [September 11, 2021, 6:29pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/6 "2021-09-11T18:29:40Z")
I also can’t find the directory /usr/lib/arb/lib/export I exported in my current directory, should I export it the aforementioned directory? when I used cd /usr/lib/arb/lib/export I couldn’t find bash: cd: /usr/lib/arb/ no such file or directory I installed that just in the conda env so I am not a system user, in addition, I can’t install using sudo as I am not a system user ---
**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\ **Post date:** [September 13, 2021, 1:35pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/7 "2021-09-13T13:35:15Z")
Hi Marwa - Sorry, I don’t use conda. You need to create that file and save it to `$ARBHOME/lib/export/`. If you type `ls $ARBHOME` at your prompt what do you get? Do you really need to go through arb? All of the 16S files are posted to the mothur wiki, so you shouldn’t need to do this unless you’re trying to do something a bit different. Pat ---
**Author:** ![MarwaTawfik](https://avatars.discourse-cdn.com/v4/letter/m/ee59a6/32.png) [@MarwaTawfik](https://forum.mothur.org/u/MarwaTawfik)\ **Post date:** [September 14, 2021, 1:57pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/8 "2021-09-14T13:57:21Z")
Many Thanks, Pat for your reply. > [@pschloss](#): > > Do you really need to go through arb? All of the 16S files are posted to the mothur wiki, so you shouldn’t need to do this unless you’re trying to do something a bit different. Do you mean I can use SILVA v138.1 available on the mothur website without making any changes? the problem is that I can’t find FASTA file in SILVA v138.1 and also I am using V3-V4 region. So what I can use instead of conda for achieving this? the readme file attached with SILVA v138.1 is asking us to perform those steps: [README for the SILVA v138.1 reference files](https://mothur.org/blog/2021/SILVA-v138_1-reference-files/). I wonder there is no ready files (fasta, etc) to be directly used as inputs in workflow steps? Cheers Marwa ---
**Author:** ![pschloss](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/pschloss/32/4_2.png) [@pschloss](https://forum.mothur.org/u/pschloss)\ **Post date:** [September 14, 2021, 5:21pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/9 "2021-09-14T17:21:43Z")
You can find the processed files at [Silva reference files](https://mothur.org/wiki/silva_reference_files/). For the V3-V4 you need to follow the instructions at [Customize your reference alignment for your favorite region](https://mothur.org/blog/2016/Customization-for-your-region/) ---
**Author:** ![mariosoto](https://avatars.discourse-cdn.com/v4/letter/m/b3f665/32.png) [@mariosoto](https://forum.mothur.org/u/mariosoto)\ **Post date:** [January 24, 2022, 8:20pm UTC](https://forum.mothur.org/t/fasta-mothur-eft/3409/10 "2022-01-24T20:20:36Z")
Hello Marwa, Here you can find something could help you with this topic. If you’re using conda, you should change /usr/lib… for your path to arb’s lib folder. > It worked for me, should it could help you. Best regards, Mario.