diff --git a/.circleci/config.yml b/.circleci/config.yml
index 8be1c3c88..2ec0f97b6 100644
--- a/.circleci/config.yml
+++ b/.circleci/config.yml
@@ -128,11 +128,11 @@ jobs:
       - run: *check_skip_job
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
-            - build-v5--{{ .Revision }}
-            - build-v5-{{ .Branch }}-
-            - build-v5-master-
-            - build-v5-
+            - build-v0-{{ .Branch }}-{{ .Revision }}
+            - build-v0--{{ .Revision }}
+            - build-v0-{{ .Branch }}-
+            - build-v0-master-
+            - build-v0-
           paths:
             - /tmp/docker
             - /tmp/images
@@ -147,7 +147,7 @@ jobs:
               docker save registry:2 | gzip > /tmp/images/registry.tar.gz
             fi
       - run:
-          name: Pull Ubuntu/focal image
+          name: Pull Ubuntu/jammy image
           command: |
             set +e
             docker pull localhost:5000/ubuntu
@@ -155,11 +155,11 @@ jobs:
             set -e
             if [[ "$success" = "0" ]]; then
                 echo "Pulling from local registry"
-                docker tag localhost:5000/ubuntu ubuntu:focal
+                docker tag localhost:5000/ubuntu ubuntu:jammy
             else
                 echo "Pulling from Docker Hub"
-                docker pull ubuntu:focal
-                docker tag ubuntu:focal localhost:5000/ubuntu
+                docker pull ubuntu:jammy
+                docker tag ubuntu:jammy localhost:5000/ubuntu
                 docker push localhost:5000/ubuntu
             fi
       - run:
@@ -235,7 +235,7 @@ jobs:
           paths:
             - src/fmriprep
       - save_cache:
-         key: build-v5-{{ .Branch }}-{{ .Revision }}
+         key: build-v0-{{ .Branch }}-{{ .Revision }}
          paths:
             - /tmp/docker
             - /tmp/images
@@ -368,7 +368,7 @@ jobs:
           at: /tmp
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
+            - build-v0-{{ .Branch }}-{{ .Revision }}
           paths:
             - /tmp/docker
             - /tmp/images
@@ -441,7 +441,7 @@ jobs:
           at: /tmp
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
+            - build-v0-{{ .Branch }}-{{ .Revision }}
           paths:
             - /tmp/docker
             - /tmp/images
@@ -651,7 +651,7 @@ jobs:
           at: /tmp
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
+            - build-v0-{{ .Branch }}-{{ .Revision }}
           paths:
             - /tmp/docker
             - /tmp/images
@@ -777,7 +777,7 @@ jobs:
           at: /tmp
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
+            - build-v0-{{ .Branch }}-{{ .Revision }}
           paths:
             - /tmp/docker
             - /tmp/images
@@ -893,7 +893,7 @@ jobs:
             fi
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
+            - build-v0-{{ .Branch }}-{{ .Revision }}
           paths:
             - /tmp/docker
             - /tmp/images
@@ -916,7 +916,7 @@ jobs:
       - run: *check_skip_job
       - restore_cache:
           keys:
-            - build-v5-{{ .Branch }}-{{ .Revision }}
+            - build-v0-{{ .Branch }}-{{ .Revision }}
           paths:
             - /tmp/docker
             - /tmp/images
diff --git a/Dockerfile b/Dockerfile
index 506cf5e07..2ce317682 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -29,8 +29,8 @@ RUN apt-get update && \
 COPY . /src/fmriprep
 RUN python -m build /src/fmriprep
 
-# Use Ubuntu 20.04 LTS
-FROM ubuntu:focal-20210416
+# Use Ubuntu 22.04 LTS
+FROM ubuntu:jammy-20221130
 
 # Prepare environment
 RUN apt-get update && \
@@ -42,6 +42,7 @@ RUN apt-get update && \
                     ca-certificates \
                     curl \
                     git \
+                    gnupg \
                     libtool \
                     lsb-release \
                     netbase \
@@ -55,9 +56,9 @@ ENV DEBIAN_FRONTEND="noninteractive" \
     LC_ALL="en_US.UTF-8"
 
 # Installing freesurfer
-COPY docker/files/freesurfer7.2-exclude.txt /usr/local/etc/freesurfer7.2-exclude.txt
-RUN curl -sSL https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.2.0/freesurfer-linux-ubuntu18_amd64-7.2.0.tar.gz \
-    | tar zxv --no-same-owner -C /opt --exclude-from=/usr/local/etc/freesurfer7.2-exclude.txt
+COPY docker/files/freesurfer7.3.2-exclude.txt /usr/local/etc/freesurfer7.3.2-exclude.txt
+RUN curl -sSL https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.3.2/freesurfer-linux-ubuntu22_amd64-7.3.2.tar.gz \
+     | tar zxv --no-same-owner -C /opt --exclude-from=/usr/local/etc/freesurfer7.3.2-exclude.txt
 
 # Simulate SetUpFreeSurfer.sh
 ENV FSL_DIR="/opt/fsl-6.0.5.1" \
@@ -158,21 +159,12 @@ ENV FSLDIR="/opt/fsl-6.0.5.1" \
     FSLGECUDAQ="cuda.q" \
     LD_LIBRARY_PATH="/opt/fsl-6.0.5.1/lib:$LD_LIBRARY_PATH"
 
-# Convert3D (neurodocker build)
-RUN echo "Downloading Convert3D ..." \
-    && mkdir -p /opt/convert3d-1.0.0 \
-    && curl -fsSL --retry 5 https://sourceforge.net/projects/c3d/files/c3d/1.0.0/c3d-1.0.0-Linux-x86_64.tar.gz/download \
-    | tar -xz -C /opt/convert3d-1.0.0 --strip-components 1 \
-    --exclude "c3d-1.0.0-Linux-x86_64/lib" \
-    --exclude "c3d-1.0.0-Linux-x86_64/share" \
-    --exclude "c3d-1.0.0-Linux-x86_64/bin/c3d_gui"
-ENV C3DPATH="/opt/convert3d-1.0.0" \
-    PATH="/opt/convert3d-1.0.0/bin:$PATH"
-
+# Configure PPA for libpng12
+RUN GNUPGHOME=/tmp gpg --keyserver hkps://keyserver.ubuntu.com --no-default-keyring --keyring /usr/share/keyrings/linuxuprising.gpg --recv 0xEA8CACC073C3DB2A \
+    && echo "deb [signed-by=/usr/share/keyrings/linuxuprising.gpg] https://ppa.launchpadcontent.net/linuxuprising/libpng12/ubuntu jammy main" > /etc/apt/sources.list.d/linuxuprising.list
 # AFNI latest (neurodocker build)
 RUN apt-get update -qq \
     && apt-get install -y -q --no-install-recommends \
-           apt-utils \
            ed \
            gsl-bin \
            libglib2.0-0 \
@@ -180,6 +172,7 @@ RUN apt-get update -qq \
            libglw1-mesa \
            libgomp1 \
            libjpeg62 \
+           libpng12-0 \
            libxm4 \
            netpbm \
            tcsh \
@@ -193,9 +186,6 @@ RUN apt-get update -qq \
     && curl -sSL --retry 5 -o /tmp/libxp6.deb http://mirrors.kernel.org/debian/pool/main/libx/libxp/libxp6_1.0.2-2_amd64.deb \
     && dpkg -i /tmp/libxp6.deb \
     && rm /tmp/libxp6.deb \
-    && curl -sSL --retry 5 -o /tmp/libpng.deb http://snapshot.debian.org/archive/debian-security/20160113T213056Z/pool/updates/main/libp/libpng/libpng12-0_1.2.49-1%2Bdeb7u2_amd64.deb \
-    && dpkg -i /tmp/libpng.deb \
-    && rm /tmp/libpng.deb \
     && apt-get install -f \
     && apt-get clean \
     && rm -rf /var/lib/apt/lists/* \
@@ -267,6 +257,15 @@ ENV PATH="/opt/conda/bin:$PATH" \
     LC_ALL="C.UTF-8" \
     PYTHONNOUSERSITE=1
 
+RUN conda install -y -n base \
+    -c anaconda \
+    -c conda-forge \
+    convert3d=1.3.0 \
+    && sync \
+    && conda clean -afy; sync \
+    && rm -rf ~/.conda ~/.cache/pip/*; sync \
+    && ldconfig
+
 # Unless otherwise specified each process should only use one thread - nipype
 # will handle parallelization
 ENV MKL_NUM_THREADS=1 \
@@ -297,10 +296,6 @@ RUN find $HOME -type d -exec chmod go=u {} + && \
     find $HOME -type f -exec chmod go=u {} + && \
     rm -rf $HOME/.npm $HOME/.conda $HOME/.empty
 
-# HACK for FreeSurfer 7.2.0
-# Fixed in https://github.com/freesurfer/freesurfer/pull/886, so remove on release
-ENV FREESURFER="/opt/freesurfer"
-
 ENV IS_DOCKER_8395080871=1
 
 RUN ldconfig
diff --git a/docker/files/freesurfer7.2-exclude.txt b/docker/files/freesurfer7.3.2-exclude.txt
similarity index 98%
rename from docker/files/freesurfer7.2-exclude.txt
rename to docker/files/freesurfer7.3.2-exclude.txt
index d3d66f870..a817a062b 100644
--- a/docker/files/freesurfer7.2-exclude.txt
+++ b/docker/files/freesurfer7.3.2-exclude.txt
@@ -1,3 +1,4 @@
+freesurfer/average/3T18yoSchwartzReactN32_as_orig.4dfp.hdr
 freesurfer/average/3T18yoSchwartzReactN32_as_orig.4dfp.ifh
 freesurfer/average/3T18yoSchwartzReactN32_as_orig.4dfp.img
 freesurfer/average/3T18yoSchwartzReactN32_as_orig.4dfp.img.rec
@@ -12,26 +13,63 @@ freesurfer/average/711-2B_as_mni_average_305_mask.4dfp.img.rec
 freesurfer/average/711-2C_as_mni_average_305.4dfp.hdr
 freesurfer/average/711-2C_as_mni_average_305.4dfp.img.rec
 freesurfer/average/711-2C_as_mni_average_305.4dfp.mat
-freesurfer/average/RB_all_2008-03-26.mni152.2mm.lta
-freesurfer/average/RB_all_2016-05-10.vc700.gca
-freesurfer/average/RB_all_2019_10_25.talxfm.mni305.gca
-freesurfer/average/lh.DKTatlas40.gcs
-freesurfer/average/lh.atlas2002_simple.gcs
-freesurfer/average/lh.average.tif
+freesurfer/average/aseg+spmhead+vermis+pons.ixi.gca
 freesurfer/average/BrainstemSS
-freesurfer/average/Yeo_Brainmap_MNI152
-freesurfer/average/samseg
 freesurfer/average/Buckner_JNeurophysiol11_MNI152
-freesurfer/average/Yeo_JNeurophysiol11_MNI152
 freesurfer/average/Choi_JNeurophysiol12_MNI152
-freesurfer/average/mult-comp-cor
+freesurfer/average/colortable_desikan_killiany.txt
+freesurfer/average/face.gca
 freesurfer/average/HippoSF
+freesurfer/average/label_scales.dat
+freesurfer/average/lh.atlas2002_simple.gcs
+freesurfer/average/lh.atlas2005_simple.gcs
+freesurfer/average/lh.average.curvature.filled.buckner40.tif
+freesurfer/average/lh.average.CURVATURE.tif
+freesurfer/average/lh.average.tif
+freesurfer/average/lh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs
+freesurfer/average/lh.destrieux.simple.2009-07-29.gcs
+freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2020-05-13.gcs
+freesurfer/average/lh.DKTatlas100.gcs
+freesurfer/average/lh.DKTatlas40.gcs
+freesurfer/average/lh_trans_toSulc.gcs
+freesurfer/average/mideface-atlas
+freesurfer/average/mni152.mni305.cor.subfov1.dat
+freesurfer/average/mni152.mni305.cor.subfov2.dat
+freesurfer/average/mni152.register.dat
+freesurfer/average/mni305.cor.readme
+freesurfer/average/mni305.cor.subfov1.mgz
+freesurfer/average/mni305.cor.subfov1.reg
+freesurfer/average/mni305.cor.subfov2.mgz
+freesurfer/average/mni305.cor.subfov2.reg
+freesurfer/average/mni305.mask.cor.mgz
+freesurfer/average/mni_average_305.4dfp.hdr
+freesurfer/average/mni_average_305.4dfp.ifh
+freesurfer/average/mni_average_305.4dfp.img
+freesurfer/average/mni_average_305.4dfp.img.rec
+freesurfer/average/mult-comp-cor
+freesurfer/average/pons.mni152.2mm.mgz
+freesurfer/average/RB_all_2008-03-26.mni152.2mm.lta
+freesurfer/average/RB_all_2016-05-10.vc700.gca
+freesurfer/average/RB_all_2019_10_25.talxfm.mni305.gca
 freesurfer/average/RB_all_withskull_2016-05-10.vc700.gca
 freesurfer/average/RB_all_withskull_2019_10_22.talxfm.mni305.gca
+freesurfer/average/rh.atlas2002_simple.gcs
+freesurfer/average/rh.atlas2005_simple.gcs
+freesurfer/average/rh.average.curvature.filled.buckner40.tif
+freesurfer/average/rh.average.CURVATURE.tif
+freesurfer/average/rh.average.tif
+freesurfer/average/rh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs
+freesurfer/average/rh.destrieux.simple.2009-07-29.gcs
+freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2020-05-13.gcs
+freesurfer/average/rh.DKTatlas100.gcs
+freesurfer/average/rh.DKTatlas40.gcs
+freesurfer/average/rh_trans_toSulc.gcs
 freesurfer/average/RLB700_atlas_as_orig.4dfp.hdr
 freesurfer/average/RLB700_atlas_as_orig.4dfp.ifh
 freesurfer/average/RLB700_atlas_as_orig.4dfp.img
 freesurfer/average/RLB700_atlas_as_orig.4dfp.img.rec
+freesurfer/average/samseg
+freesurfer/average/surf
 freesurfer/average/SVIP_Adult_Comp_N24_as_orig.4dfp.hdr
 freesurfer/average/SVIP_Adult_Comp_N24_as_orig.4dfp.ifh
 freesurfer/average/SVIP_Adult_Comp_N24_as_orig.4dfp.img
@@ -60,49 +98,45 @@ freesurfer/average/SVIP_Young_Patient_N12_as_orig.4dfp.hdr
 freesurfer/average/SVIP_Young_Patient_N12_as_orig.4dfp.ifh
 freesurfer/average/SVIP_Young_Patient_N12_as_orig.4dfp.img
 freesurfer/average/SVIP_Young_Patient_N12_as_orig.4dfp.img.rec
-freesurfer/average/aseg+spmhead+vermis+pons.ixi.gca
-freesurfer/average/colortable_desikan_killiany.txt
-freesurfer/average/face.gca
-freesurfer/average/label_scales.dat
-freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2020-05-13.gcs
-freesurfer/average/lh.DKTatlas100.gcs
-freesurfer/average/lh_trans_toSulc.gcs
-freesurfer/average/ThalamicNuclei
-freesurfer/average/lh.atlas2005_simple.gcs
-freesurfer/average/surf
-freesurfer/average/mni152.mni305.cor.subfov1.dat
-freesurfer/average/mni152.mni305.cor.subfov2.dat
-freesurfer/average/mni152.register.dat
-freesurfer/average/mni305.cor.readme
-freesurfer/average/mni305.cor.subfov1.mgz
-freesurfer/average/mni305.cor.subfov1.reg
-freesurfer/average/mni305.cor.subfov2.mgz
-freesurfer/average/mni305.cor.subfov2.reg
-freesurfer/average/mni305.mask.cor.mgz
-freesurfer/average/mni_average_305.4dfp.hdr
-freesurfer/average/mni_average_305.4dfp.ifh
-freesurfer/average/mni_average_305.4dfp.img
-freesurfer/average/mni_average_305.4dfp.img.rec
-freesurfer/average/pons.mni152.2mm.mgz
-freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2020-05-13.gcs
-freesurfer/average/rh.DKTatlas100.gcs
-freesurfer/average/rh.DKTatlas40.gcs
-freesurfer/average/rh.atlas2002_simple.gcs
-freesurfer/average/rh.atlas2005_simple.gcs
-freesurfer/average/rh.average.CURVATURE.tif
-freesurfer/average/rh.average.curvature.filled.buckner40.tif
-freesurfer/average/rh.average.tif
-freesurfer/average/rh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs
-freesurfer/average/rh.destrieux.simple.2009-07-29.gcs
-freesurfer/average/rh_trans_toSulc.gcs
 freesurfer/average/talairach_mixed_with_skull.gca
+freesurfer/average/ThalamicNuclei
 freesurfer/average/tissue_parms.txt
 freesurfer/average/wmsa_new_eesmith.gca
-freesurfer/average/3T18yoSchwartzReactN32_as_orig.4dfp.hdr
-freesurfer/average/lh.average.CURVATURE.tif
-freesurfer/average/lh.average.curvature.filled.buckner40.tif
-freesurfer/average/lh.curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs
-freesurfer/average/lh.destrieux.simple.2009-07-29.gcs
+freesurfer/average/Yeo_Brainmap_MNI152
+freesurfer/average/Yeo_JNeurophysiol11_MNI152
+freesurfer/bin/3dvolreg.afni
+freesurfer/bin/4dfptoanalyze
+freesurfer/bin/anatomiCutsUtils
+freesurfer/bin/annot2std
+freesurfer/bin/aparc2feat
+freesurfer/bin/aparcstats2table
+freesurfer/bin/aparc_stats_aseg
+freesurfer/bin/aparcstatsdiff
+freesurfer/bin/apas2aseg
+freesurfer/bin/applyMorph
+freesurfer/bin/aseg2feat
+freesurfer/bin/asegstats2table
+freesurfer/bin/asegstatsdiff
+freesurfer/bin/bblabel
+freesurfer/bin/bbmask
+freesurfer/bin/bedpostx_mgh
+freesurfer/bin/beta2sxa
+freesurfer/bin/bet.fsl
+freesurfer/bin/biasfield
+freesurfer/bin/bmedits2surf
+freesurfer/bin/brec
+freesurfer/bin/brec.awk
+freesurfer/bin/browse-minc-header.tcl
+freesurfer/bin/bugr
+freesurfer/bin/build_desikan_killiany_gcs.csh
+freesurfer/bin/cblumwmgyri
+freesurfer/bin/checkMCR.sh
+freesurfer/bin/check_recons.sh
+freesurfer/bin/check_siemens_dir
+freesurfer/bin/check_subject
+freesurfer/bin/clear_fs_env.csh
+freesurfer/bin/compute_interrater_variability.csh
+freesurfer/bin/compute_label_vals.csh
 freesurfer/bin/compute_label_volumes.csh
 freesurfer/bin/connectgraph
 freesurfer/bin/cor_to_minc
@@ -118,8 +152,8 @@ freesurfer/bin/deface_subject
 freesurfer/bin/defect-seg
 freesurfer/bin/dicom-rename
 freesurfer/bin/diffusionUtils
-freesurfer/bin/dmri_AnatomiCuts
 freesurfer/bin/dmri_ac.sh
+freesurfer/bin/dmri_AnatomiCuts
 freesurfer/bin/dmri_bset
 freesurfer/bin/dmri_coloredFA
 freesurfer/bin/dmri_extractSurfaceMeasurements
@@ -133,6 +167,10 @@ freesurfer/bin/dmri_neighboringRegions
 freesurfer/bin/dmri_paths
 freesurfer/bin/dmri_pathstats
 freesurfer/bin/dmri_projectEndPoints
+freesurfer/bin/dmrirc.example
+freesurfer/bin/dmrirc.long.example
+freesurfer/bin/dmrirc.long.multiscan.example
+freesurfer/bin/dmrirc.multiscan.example
 freesurfer/bin/dmri_saveHistograms
 freesurfer/bin/dmri_spline
 freesurfer/bin/dmri_stats_ac
@@ -141,10 +179,6 @@ freesurfer/bin/dmri_train
 freesurfer/bin/dmri_trk2trk
 freesurfer/bin/dmri_violinPlots
 freesurfer/bin/dmri_vox2vox
-freesurfer/bin/dmrirc.example
-freesurfer/bin/dmrirc.long.example
-freesurfer/bin/dmrirc.long.multiscan.example
-freesurfer/bin/dmrirc.multiscan.example
 freesurfer/bin/dt_recon
 freesurfer/bin/epidewarp.fsl
 freesurfer/bin/exportGcam
@@ -152,44 +186,43 @@ freesurfer/bin/feat2segstats
 freesurfer/bin/feat2surf
 freesurfer/bin/findsession
 freesurfer/bin/fix_subject
-freesurfer/bin/fix_subject-lh
-freesurfer/bin/fix_subject-rh
 freesurfer/bin/fix_subject_corrected
 freesurfer/bin/fix_subject_corrected-lh
 freesurfer/bin/fix_subject_corrected-rh
+freesurfer/bin/fix_subject-lh
 freesurfer/bin/fix_subject_on_seychelles
+freesurfer/bin/fix_subject-rh
 freesurfer/bin/fixup_mni_paths
 freesurfer/bin/flip_4dfp
-freesurfer/bin/flirt.newdefault.20080811.sch
 freesurfer/bin/flirt.fsl
+freesurfer/bin/flirt.newdefault.20080811.sch
 freesurfer/bin/fname2ext
 freesurfer/bin/fname2stem
 freesurfer/bin/freesurfer
 freesurfer/bin/freeview
-freesurfer/bin/fsPrintHelp
-freesurfer/bin/fs_install_mcr
-freesurfer/bin/fs_lib_check
-freesurfer/bin/fs_run_from_mcr
-freesurfer/bin/fs_spmreg.glnxa64
-freesurfer/bin/fs_temp_file
-freesurfer/bin/fs_tutorial_data
-freesurfer/bin/fs_update
 freesurfer/bin/fscalc
 freesurfer/bin/fscalc.fsl
 freesurfer/bin/fsdcmdecompress
 freesurfer/bin/fsfget
 freesurfer/bin/fsfirst.fsl
+freesurfer/bin/fs_install_mcr
 freesurfer/bin/fsl.5.0.2.xyztrans.sch
+freesurfer/bin/fs_lib_check
 freesurfer/bin/fsl_label2voxel
-freesurfer/bin/fsl_rigid_register
-freesurfer/bin/fsl_sub_mgh
 freesurfer/bin/fslmaths.fsl
 freesurfer/bin/fslorient.fsl
 freesurfer/bin/fslregister
+freesurfer/bin/fsl_rigid_register
+freesurfer/bin/fsl_sub_mgh
 freesurfer/bin/fslswapdim.fsl
 freesurfer/bin/fspalm
+freesurfer/bin/fsPrintHelp
 freesurfer/bin/fsr-coreg
 freesurfer/bin/fsr-import
+freesurfer/bin/fs_run_from_mcr
+freesurfer/bin/fs_spmreg.glnxa64
+freesurfer/bin/fs_tutorial_data
+freesurfer/bin/fs_update
 freesurfer/bin/fsvglrun
 freesurfer/bin/fvcompare
 freesurfer/bin/gca-apply
@@ -200,7 +233,6 @@ freesurfer/bin/gcatrainskull
 freesurfer/bin/gdcmconv.fs
 freesurfer/bin/gems_compute_binary_atlas_probs
 freesurfer/bin/get_label_thickness
-freesurfer/bin/grad_unwarp
 freesurfer/bin/groupstats
 freesurfer/bin/groupstatsdiff
 freesurfer/bin/gtmseg
@@ -216,20 +248,20 @@ freesurfer/bin/histo_synthesize
 freesurfer/bin/ico_supersample
 freesurfer/bin/id.xfm
 freesurfer/bin/inflate_subject
-freesurfer/bin/inflate_subject-lh
-freesurfer/bin/inflate_subject-rh
 freesurfer/bin/inflate_subject3
+freesurfer/bin/inflate_subject-lh
 freesurfer/bin/inflate_subject_new
 freesurfer/bin/inflate_subject_new-lh
 freesurfer/bin/inflate_subject_new-rh
+freesurfer/bin/inflate_subject-rh
 freesurfer/bin/inflate_subject_sc
 freesurfer/bin/irepifitvol
 freesurfer/bin/irepifitvol.glnx64
-freesurfer/bin/is-surface
 freesurfer/bin/isanalyze
 freesurfer/bin/isnifti
 freesurfer/bin/isolate_labels.csh
 freesurfer/bin/isolate_labels_keeporigval.csh
+freesurfer/bin/is-surface
 freesurfer/bin/jkgcatrain
 freesurfer/bin/label2flat
 freesurfer/bin/label2patch
@@ -237,16 +269,17 @@ freesurfer/bin/label_area
 freesurfer/bin/label_border
 freesurfer/bin/label_child
 freesurfer/bin/label_elderly_subject
+freesurfer/bin/labels_disjoint
+freesurfer/bin/labels_intersect
 freesurfer/bin/label_subject
 freesurfer/bin/label_subject_flash
 freesurfer/bin/label_subject_mixed
-freesurfer/bin/labels_disjoint
-freesurfer/bin/labels_intersect
 freesurfer/bin/labels_union
 freesurfer/bin/list_otl_labels
 freesurfer/bin/listsubj
 freesurfer/bin/long_create_base_sigma
 freesurfer/bin/long_create_orig
+freesurfer/bin/longmc
 freesurfer/bin/long_mris_slopes
 freesurfer/bin/long_qdec_table
 freesurfer/bin/long_stats_combine
@@ -254,10 +287,8 @@ freesurfer/bin/long_stats_slopes
 freesurfer/bin/long_stats_tps
 freesurfer/bin/long_submit_jobs
 freesurfer/bin/long_submit_postproc
-freesurfer/bin/longmc
 freesurfer/bin/lpcregister
 freesurfer/bin/lta_diff
-freesurfer/bin/make-segvol-table
 freesurfer/bin/make_average_subcort
 freesurfer/bin/make_average_subject
 freesurfer/bin/make_average_surface
@@ -266,6 +297,7 @@ freesurfer/bin/make_cortex_label
 freesurfer/bin/make_exvivo_filled
 freesurfer/bin/make_folding_atlas
 freesurfer/bin/make_hemi_mask
+freesurfer/bin/make-segvol-table
 freesurfer/bin/make_symmetric
 freesurfer/bin/make_upright
 freesurfer/bin/makevol
@@ -274,8 +306,8 @@ freesurfer/bin/map_all_labels-lh
 freesurfer/bin/map_central_sulcus
 freesurfer/bin/map_to_base
 freesurfer/bin/meanval
-freesurfer/bin/merge_stats_tables
 freesurfer/bin/mergeseg
+freesurfer/bin/merge_stats_tables
 freesurfer/bin/minc2seqinfo
 freesurfer/bin/mkheadsurf
 freesurfer/bin/mkima_index.tcl
@@ -291,13 +323,10 @@ freesurfer/bin/morph_rgb-lh
 freesurfer/bin/morph_rgb-rh
 freesurfer/bin/morph_subject
 freesurfer/bin/morph_subject-lh
-freesurfer/bin/morph_subject-rh
 freesurfer/bin/morph_subject_on_seychelles
+freesurfer/bin/morph_subject-rh
 freesurfer/bin/morph_tables-lh
 freesurfer/bin/morph_tables-rh
-freesurfer/bin/mri-func2sph
-freesurfer/bin/mri-funcvits
-freesurfer/bin/mri-sph2surf
 freesurfer/bin/mri_align_long.csh
 freesurfer/bin/mri_aparc2wmseg
 freesurfer/bin/mri_apply_autoencoder
@@ -310,9 +339,9 @@ freesurfer/bin/mri_average
 freesurfer/bin/mri_bc_sc_bias_correct
 freesurfer/bin/mri_brain_volume
 freesurfer/bin/mri_build_priors
+freesurfer/bin/mri_cal_renormalize_gca
 freesurfer/bin/mri_ca_tissue_parms
 freesurfer/bin/mri_ca_train
-freesurfer/bin/mri_cal_renormalize_gca
 freesurfer/bin/mri_cht2p
 freesurfer/bin/mri_classify
 freesurfer/bin/mri_cnr
@@ -337,8 +366,8 @@ freesurfer/bin/mri_cvs_register
 freesurfer/bin/mri_cvs_requiredfiles.txt
 freesurfer/bin/mri_dct_align
 freesurfer/bin/mri_dct_align_binary
-freesurfer/bin/mri_dist_surf_label
 freesurfer/bin/mri_distance_transform
+freesurfer/bin/mri_dist_surf_label
 freesurfer/bin/mri_divide_segmentation
 freesurfer/bin/mri_edit_segmentation
 freesurfer/bin/mri_edit_segmentation_with_surfaces
@@ -355,6 +384,8 @@ freesurfer/bin/mri_fdr
 freesurfer/bin/mri_fieldsign
 freesurfer/bin/mri_fit_bias
 freesurfer/bin/mri_fslmat_to_lta
+freesurfer/bin/mri-func2sph
+freesurfer/bin/mri-funcvits
 freesurfer/bin/mri_fuse_intensity_images
 freesurfer/bin/mri_gca_ambiguous
 freesurfer/bin/mri_gcab_train
@@ -400,21 +431,21 @@ freesurfer/bin/mri_motion_correct
 freesurfer/bin/mri_motion_correct2
 freesurfer/bin/mri_ms_EM
 freesurfer/bin/mri_ms_EM_with_atlas
-freesurfer/bin/mri_ms_LDA
 freesurfer/bin/mri_ms_fitparms
+freesurfer/bin/mri_ms_LDA
 freesurfer/bin/mri_multiscale_segment
 freesurfer/bin/mri_multispectral_segment
 freesurfer/bin/mri_nl_align
 freesurfer/bin/mri_nl_align_binary
 freesurfer/bin/mri_nlfilter
 freesurfer/bin/mri_paint
-freesurfer/bin/mri_parse_sdcmdir
 freesurfer/bin/mri_parselabel
+freesurfer/bin/mri_parse_sdcmdir
 freesurfer/bin/mri_partial_ribbon
 freesurfer/bin/mri_path2label
 freesurfer/bin/mri_polv
-freesurfer/bin/mri_probe_ima
 freesurfer/bin/mri_probedicom
+freesurfer/bin/mri_probe_ima
 freesurfer/bin/mri_reduce
 freesurfer/bin/mri_refine_seg
 freesurfer/bin/mri_register
@@ -425,48 +456,16 @@ freesurfer/bin/mri_rf_long_train
 freesurfer/bin/mri_rf_train
 freesurfer/bin/mri_ribbon
 freesurfer/bin/mri_rigid_register
-freesurfer/bin/mri_sbbr
-freesurfer/bin/mri_seg_overlap
-freesurfer/bin/mri_segcentroids
-freesurfer/bin/mri_seghead
-freesurfer/bin/mri_segment_hypothalamic_subunits
-freesurfer/bin/mri_segment_tumor
-freesurfer/bin/mri_segment_wm_damage
-freesurfer/bin/mri_simulate_atrophy
-freesurfer/bin/mri_strip_nonwhite
-freesurfer/bin/mri_strip_subject_info
-freesurfer/bin/mri_surfacemask
-freesurfer/bin/mri_synth_strip
-freesurfer/bin/mri_synthesize
-freesurfer/bin/mri_threshold
-freesurfer/bin/mri_topologycorrection
-freesurfer/bin/mri_train
-freesurfer/bin/mri_train_autoencoder
-freesurfer/bin/mri_transform
-freesurfer/bin/mri_transform_to_COR
-freesurfer/bin/mri_twoclass
-freesurfer/bin/mri_update_gca
-freesurfer/bin/mri_validate_skull_stripped
-freesurfer/bin/mri_vessel_segment
-freesurfer/bin/mri_vol2label
-freesurfer/bin/mri_vol2roi
-freesurfer/bin/mri_volcluster
-freesurfer/bin/mri_volsynth
-freesurfer/bin/mri_warp_convert
-freesurfer/bin/mri_wbc
-freesurfer/bin/mri_wmfilter
-freesurfer/bin/mri_xcorr
-freesurfer/bin/mri_xvolavg
-freesurfer/bin/mri_z2p
 freesurfer/bin/mris2rgb
 freesurfer/bin/mris_AA_shrinkwrap
-freesurfer/bin/mris_BA_segment
 freesurfer/bin/mris_add_template
 freesurfer/bin/mris_annot_diff
 freesurfer/bin/mris_annot_to_segmentation
 freesurfer/bin/mris_aseg_distance
 freesurfer/bin/mris_average_curvature
 freesurfer/bin/mris_average_parcellation
+freesurfer/bin/mris_BA_segment
+freesurfer/bin/mri_sbbr
 freesurfer/bin/mris_ca_deform
 freesurfer/bin/mris_ca_train
 freesurfer/bin/mris_classify_thickness
@@ -485,6 +484,12 @@ freesurfer/bin/mris_density
 freesurfer/bin/mris_distance_map
 freesurfer/bin/mris_distance_to_label
 freesurfer/bin/mris_distance_transform
+freesurfer/bin/mri_segcentroids
+freesurfer/bin/mri_seghead
+freesurfer/bin/mri_segment_hypothalamic_subunits
+freesurfer/bin/mri_segment_tumor
+freesurfer/bin/mri_segment_wm_damage
+freesurfer/bin/mri_seg_overlap
 freesurfer/bin/mris_entropy
 freesurfer/bin/mris_errors
 freesurfer/bin/mris_extract_patches
@@ -498,6 +503,7 @@ freesurfer/bin/mris_fwhm
 freesurfer/bin/mris_gradient
 freesurfer/bin/mris_hausdorff_dist
 freesurfer/bin/mris_image2vtk
+freesurfer/bin/mri_simulate_atrophy
 freesurfer/bin/mris_info
 freesurfer/bin/mris_init_global_tractography
 freesurfer/bin/mris_intensity_profile
@@ -524,9 +530,11 @@ freesurfer/bin/mris_multiscale_stats
 freesurfer/bin/mris_niters2fwhm
 freesurfer/bin/mris_nudge
 freesurfer/bin/mris_parcellate_connectivity
+freesurfer/bin/mri-sph2surf
 freesurfer/bin/mris_pmake
 freesurfer/bin/mris_preproc
 freesurfer/bin/mris_profileClustering
+freesurfer/bin/mrisp_write
 freesurfer/bin/mris_refine_surfaces
 freesurfer/bin/mris_register_label_map
 freesurfer/bin/mris_register_to_label
@@ -543,8 +551,8 @@ freesurfer/bin/mris_sample_label
 freesurfer/bin/mris_sample_parc
 freesurfer/bin/mris_seg2annot
 freesurfer/bin/mris_segment
-freesurfer/bin/mris_segment_vals
 freesurfer/bin/mris_segmentation_stats
+freesurfer/bin/mris_segment_vals
 freesurfer/bin/mris_shrinkwrap
 freesurfer/bin/mris_simulate_atrophy
 freesurfer/bin/mris_smooth_intracortical
@@ -558,15 +566,39 @@ freesurfer/bin/mris_thickness_comparison
 freesurfer/bin/mris_transform
 freesurfer/bin/mris_translate_annotation
 freesurfer/bin/mris_transmantle_dysplasia_paths
+freesurfer/bin/mri_strip_nonwhite
+freesurfer/bin/mri_strip_subject_info
 freesurfer/bin/mris_twoclass
+freesurfer/bin/mri_surfacemask
 freesurfer/bin/mris_volmask_novtk
 freesurfer/bin/mris_volmask_vtk
 freesurfer/bin/mris_volsmooth
 freesurfer/bin/mris_volume
-freesurfer/bin/mris_w_to_curv
 freesurfer/bin/mris_warp
 freesurfer/bin/mris_wm_volume
-freesurfer/bin/mrisp_write
+freesurfer/bin/mris_w_to_curv
+freesurfer/bin/mri_synthesize
+freesurfer/bin/mri_synthstrip
+freesurfer/bin/mri_threshold
+freesurfer/bin/mri_topologycorrection
+freesurfer/bin/mri_train
+freesurfer/bin/mri_train_autoencoder
+freesurfer/bin/mri_transform
+freesurfer/bin/mri_transform_to_COR
+freesurfer/bin/mri_twoclass
+freesurfer/bin/mri_update_gca
+freesurfer/bin/mri_validate_skull_stripped
+freesurfer/bin/mri_vessel_segment
+freesurfer/bin/mri_vol2label
+freesurfer/bin/mri_vol2roi
+freesurfer/bin/mri_volcluster
+freesurfer/bin/mri_volsynth
+freesurfer/bin/mri_warp_convert
+freesurfer/bin/mri_wbc
+freesurfer/bin/mri_wmfilter
+freesurfer/bin/mri_xcorr
+freesurfer/bin/mri_xvolavg
+freesurfer/bin/mri_z2p
 freesurfer/bin/ms_refine_subject
 freesurfer/bin/nmovie_qt
 freesurfer/bin/oct_register_mosaic
@@ -581,6 +613,7 @@ freesurfer/bin/predict_v1.sh
 freesurfer/bin/print_unique_labels.csh
 freesurfer/bin/progressbar.tcl
 freesurfer/bin/qatools.py
+freesurfer/bin/qdec
 freesurfer/bin/qdec_glmfit
 freesurfer/bin/qt.conf
 freesurfer/bin/quantifyBrainstemStructures.sh
@@ -592,55 +625,57 @@ freesurfer/bin/rcbf-prep
 freesurfer/bin/rebuild_gca_atlas.csh
 freesurfer/bin/recon-all-exvivo
 freesurfer/bin/recon-all.makefile
-freesurfer/bin/reg-feat2anat
-freesurfer/bin/reg-mni305.2mm
 freesurfer/bin/regdat2xfm
-freesurfer/bin/register.csh
+freesurfer/bin/reg-feat2anat
 freesurfer/bin/register_child
+freesurfer/bin/register.csh
 freesurfer/bin/register_elderly_subject
 freesurfer/bin/register_subject
 freesurfer/bin/register_subject_flash
 freesurfer/bin/register_subject_mixed
+freesurfer/bin/reg-mni305.2mm
 freesurfer/bin/reinflate_subject
 freesurfer/bin/reinflate_subject-lh
 freesurfer/bin/reinflate_subject-rh
 freesurfer/bin/remove_talairach
-freesurfer/bin/renormalize_T1_subject
 freesurfer/bin/renormalize_subject
 freesurfer/bin/renormalize_subject_keep_editting
+freesurfer/bin/renormalize_T1_subject
 freesurfer/bin/repair_siemens_file
 freesurfer/bin/reregister_subject_mixed
 freesurfer/bin/rtview
+freesurfer/bin/run_mris_preproc
 freesurfer/bin/run-qdec-glm
+freesurfer/bin/run_samseg_long
 freesurfer/bin/run_SegmentSubfieldsT1Longitudinal.sh
 freesurfer/bin/run_SegmentSubject.sh
-freesurfer/bin/run_SegmentThalamicNuclei.sh
-freesurfer/bin/run_mris_preproc
-freesurfer/bin/run_samseg_long
-freesurfer/bin/run_segmentSubjectT1T2_autoEstimateAlveusML.sh
 freesurfer/bin/run_segmentSubjectT1_autoEstimateAlveusML.sh
+freesurfer/bin/run_segmentSubjectT1T2_autoEstimateAlveusML.sh
 freesurfer/bin/run_segmentSubjectT2_autoEstimateAlveusML.sh
+freesurfer/bin/run_SegmentThalamicNuclei.sh
 freesurfer/bin/samseg
-freesurfer/bin/samseg-long
 freesurfer/bin/samseg2recon
+freesurfer/bin/samseg-long
 freesurfer/bin/sbtiv
 freesurfer/bin/seg2filled
 freesurfer/bin/segmentBS.sh
-freesurfer/bin/segmentHA_T1.sh
 freesurfer/bin/segmentHA_T1_long.sh
+freesurfer/bin/segmentHA_T1.sh
 freesurfer/bin/segmentHA_T2.sh
-freesurfer/bin/segmentSubject
-freesurfer/bin/segmentSubjectT1T2_autoEstimateAlveusML
-freesurfer/bin/segmentSubjectT1_autoEstimateAlveusML
-freesurfer/bin/segmentSubjectT2_autoEstimateAlveusML
-freesurfer/bin/segmentThalamicNuclei.sh
 freesurfer/bin/segment_monkey
+freesurfer/bin/SegmentSubfieldsT1Longitudinal
 freesurfer/bin/segment_subject
+freesurfer/bin/segmentSubject
 freesurfer/bin/segment_subject_notal
 freesurfer/bin/segment_subject_notal2
 freesurfer/bin/segment_subject_old_skull_strip
 freesurfer/bin/segment_subject_sc
+freesurfer/bin/segmentSubjectT1_autoEstimateAlveusML
+freesurfer/bin/segmentSubjectT1T2_autoEstimateAlveusML
+freesurfer/bin/segmentSubjectT2_autoEstimateAlveusML
 freesurfer/bin/segment_subject_talmgh
+freesurfer/bin/SegmentThalamicNuclei
+freesurfer/bin/segmentThalamicNuclei.sh
 freesurfer/bin/segpons
 freesurfer/bin/setlabelstat
 freesurfer/bin/sfa2fieldsign
@@ -652,9 +687,10 @@ freesurfer/bin/sphere_subject
 freesurfer/bin/sphere_subject-lh
 freesurfer/bin/sphere_subject-rh
 freesurfer/bin/spherical_st
-freesurfer/bin/spm_t_to_b
+freesurfer/bin/Spline3_test
 freesurfer/bin/spmmat2register
 freesurfer/bin/spmregister
+freesurfer/bin/spm_t_to_b
 freesurfer/bin/sratio
 freesurfer/bin/stat_normalize
 freesurfer/bin/stattablediff
@@ -667,10 +703,10 @@ freesurfer/bin/swi_preprocess
 freesurfer/bin/swi_process
 freesurfer/bin/t4img_4dfp
 freesurfer/bin/t4imgs_4dfp
-freesurfer/bin/tal_QC_AZS
-freesurfer/bin/tal_compare
 freesurfer/bin/talairach2
 freesurfer/bin/talairach_mgh
+freesurfer/bin/tal_compare
+freesurfer/bin/tal_QC_AZS
 freesurfer/bin/talsegprob
 freesurfer/bin/template
 freesurfer/bin/testOrientationPlanesFromParcellation
@@ -690,12 +726,12 @@ freesurfer/bin/tractstats2table
 freesurfer/bin/train-gcs-atlas
 freesurfer/bin/tridec
 freesurfer/bin/trk_tools
-freesurfer/bin/unpack_ima.tcl
 freesurfer/bin/unpack_ima1.tcl
-freesurfer/bin/unpack_mnc.tcl
 freesurfer/bin/unpackimadir
 freesurfer/bin/unpackimadir2
+freesurfer/bin/unpack_ima.tcl
 freesurfer/bin/unpackmincdir
+freesurfer/bin/unpack_mnc.tcl
 freesurfer/bin/unpacksdcmdir
 freesurfer/bin/usbtree
 freesurfer/bin/vol2segavg
@@ -709,49 +745,15 @@ freesurfer/bin/wmsaseg
 freesurfer/bin/xcerebralseg
 freesurfer/bin/xcorr
 freesurfer/bin/xfmrot
-freesurfer/bin/xhemi-tal
 freesurfer/bin/xhemireg
+freesurfer/bin/xhemi-tal
 freesurfer/bin/xsanatreg
 freesurfer/bin/zero_lt_4dfp
-freesurfer/bin/3dvolreg.afni
-freesurfer/bin/4dfptoanalyze
-freesurfer/bin/SegmentSubfieldsT1Longitudinal
-freesurfer/bin/SegmentThalamicNuclei
-freesurfer/bin/Spline3_test
-freesurfer/bin/anatomiCutsUtils
-freesurfer/bin/annot2std
-freesurfer/bin/aparc2feat
-freesurfer/bin/aparc_stats_aseg
-freesurfer/bin/aparcstats2table
-freesurfer/bin/aparcstatsdiff
-freesurfer/bin/apas2aseg
-freesurfer/bin/applyMorph
-freesurfer/bin/aseg2feat
-freesurfer/bin/asegstats2table
-freesurfer/bin/asegstatsdiff
-freesurfer/bin/bblabel
-freesurfer/bin/bbmask
-freesurfer/bin/bedpostx_mgh
-freesurfer/bin/bet.fsl
-freesurfer/bin/beta2sxa
-freesurfer/bin/biasfield
-freesurfer/bin/bmedits2surf
-freesurfer/bin/brec
-freesurfer/bin/brec.awk
-freesurfer/bin/browse-minc-header.tcl
-freesurfer/bin/bugr
-freesurfer/bin/build_desikan_killiany_gcs.csh
-freesurfer/bin/cblumwmgyri
-freesurfer/bin/checkMCR.sh
-freesurfer/bin/check_recons.sh
-freesurfer/bin/check_siemens_dir
-freesurfer/bin/check_subject
-freesurfer/bin/clear_fs_env.csh
-freesurfer/bin/compute_interrater_variability.csh
-freesurfer/bin/compute_label_vals.csh
-freesurfer/bin/qdec
+freesurfer/DefectLUT.txt
 freesurfer/diffusion
 freesurfer/docs/xml
+freesurfer/FreeSurferEnv.csh
+freesurfer/FreeSurferEnv.sh
 freesurfer/fsfast
 freesurfer/lib/bem/ic0.tri
 freesurfer/lib/bem/ic1.tri
@@ -768,9 +770,22 @@ freesurfer/lib/tcl
 freesurfer/lib/tktools
 freesurfer/lib/vtk
 freesurfer/matlab
+freesurfer/mni-1.4
+freesurfer/mni/bin/autocrop
+freesurfer/mni/bin/check_scale
+freesurfer/mni/bin/correct_field
+freesurfer/mni/bin/crispify
+freesurfer/mni/bin/dcm2mnc
+freesurfer/mni/bin/Display
+freesurfer/mni/bin/ecattominc
+freesurfer/mni/bin/evaluate_field
+freesurfer/mni/bin/extracttag
+freesurfer/mni/bin/field2imp
+freesurfer/mni/bin/imp2field
+freesurfer/mni/bin/invert_raw_image
+freesurfer/mni/bin/make_model
 freesurfer/mni/bin/make_phantom
 freesurfer/mni/bin/make_template
-freesurfer/mni/bin/minc_modify_header
 freesurfer/mni/bin/mincaverage
 freesurfer/mni/bin/mincbbox
 freesurfer/mni/bin/mincblur
@@ -789,6 +804,7 @@ freesurfer/mni/bin/minclookup
 freesurfer/mni/bin/mincmakescalar
 freesurfer/mni/bin/mincmakevector
 freesurfer/mni/bin/mincmath
+freesurfer/mni/bin/minc_modify_header
 freesurfer/mni/bin/mincpik
 freesurfer/mni/bin/mincresample
 freesurfer/mni/bin/mincreshape
@@ -829,33 +845,28 @@ freesurfer/mni/bin/xfmconcat
 freesurfer/mni/bin/xfminvert
 freesurfer/mni/bin/xfmtool
 freesurfer/mni/bin/zscore_vol
-freesurfer/mni/bin/Display
-freesurfer/mni/bin/autocrop
-freesurfer/mni/bin/check_scale
-freesurfer/mni/bin/correct_field
-freesurfer/mni/bin/crispify
-freesurfer/mni/bin/dcm2mnc
-freesurfer/mni/bin/ecattominc
-freesurfer/mni/bin/evaluate_field
-freesurfer/mni/bin/extracttag
-freesurfer/mni/bin/field2imp
-freesurfer/mni/bin/imp2field
-freesurfer/mni/bin/invert_raw_image
-freesurfer/mni/bin/make_model
 freesurfer/mni/data
 freesurfer/mni/etc
 freesurfer/mni/include
-freesurfer/mni/share/N3
+freesurfer/mni/mni.srcbuild.June2015.tgz
 freesurfer/mni/share/man
 freesurfer/mni/share/mni_autoreg
-freesurfer/mni/mni.srcbuild.June2015.tgz
-freesurfer/mni-1.4
+freesurfer/mni/share/N3
 freesurfer/models
-freesurfer/python/lib/python3.6/test
+freesurfer/python/lib/python3.8/test
+freesurfer/python/lib/python3.8/site-packages/caffe2
+freesurfer/python/lib/python3.8/site-packages/sklearn
+freesurfer/python/lib/python3.8/site-packages/tensorflow
+freesurfer/python/lib/python3.8/site-packages/torch
+freesurfer/python/lib/python3.8/site-packages/**/tests
 freesurfer/python/**/__pycache__
 freesurfer/python/share
+freesurfer/SegmentNoLUT.txt
 freesurfer/sessions
-freesurfer/subjects/V1_average
+freesurfer/SetUpFreeSurfer.csh
+freesurfer/SetUpFreeSurfer.sh
+freesurfer/Simple_surface_labels2009.txt
+freesurfer/sources.sh
 freesurfer/subjects/bert
 freesurfer/subjects/cvs_avg35
 freesurfer/subjects/cvs_avg35_inMNI152
@@ -863,18 +874,11 @@ freesurfer/subjects/fsaverage3
 freesurfer/subjects/fsaverage4
 freesurfer/subjects/fsaverage_sym
 freesurfer/subjects/lh.EC_average
-freesurfer/subjects/rh.EC_average
 freesurfer/subjects/README
+freesurfer/subjects/rh.EC_average
 freesurfer/subjects/sample-001.mgz
 freesurfer/subjects/sample-002.mgz
+freesurfer/subjects/V1_average
+freesurfer/tkmeditParcColorsCMA
 freesurfer/tktools
 freesurfer/trctrain
-freesurfer/DefectLUT.txt
-freesurfer/FreeSurferEnv.csh
-freesurfer/FreeSurferEnv.sh
-freesurfer/SegmentNoLUT.txt
-freesurfer/SetUpFreeSurfer.csh
-freesurfer/SetUpFreeSurfer.sh
-freesurfer/Simple_surface_labels2009.txt
-freesurfer/sources.sh
-freesurfer/tkmeditParcColorsCMA
diff --git a/docs/installation.rst b/docs/installation.rst
index 133a01895..d168d5490 100644
--- a/docs/installation.rst
+++ b/docs/installation.rst
@@ -77,14 +77,14 @@ nipype_.
 not handled by the Python's packaging system (Pypi) used to deploy
 the ``fmriprep`` package:
 
-- FSL_ (version 5.0.9)
-- ANTs_ (version 2.2.0 - NeuroDocker build)
-- AFNI_ (version Debian-16.2.07)
-- `C3D <https://sourceforge.net/projects/c3d/>`_ (version 1.0.0)
-- FreeSurfer_ (version 6.0.1)
-- `ICA-AROMA <https://github.com/maartenmennes/ICA-AROMA/archive/e8d7a58.tar.gz>`_ (commit e8d7a58, post v0.4.4-beta)
-- `bids-validator <https://github.com/bids-standard/bids-validator>`_ (version 1.4.0)
-- `connectome-workbench <https://www.humanconnectome.org/software/connectome-workbench>`_ (version Debian-1.3.2)
+- FSL_ (version 6.0.6.2)
+- ANTs_ (version 2.3.3 - NeuroDocker build)
+- AFNI_ (version Debian-23.0.00)
+- `C3D <https://sourceforge.net/projects/c3d/>`_ (version 1.3.0)
+- FreeSurfer_ (version 7.2.3)
+- `ICA-AROMA <https://github.com/maartenmennes/ICA-AROMA/archive/v0.4.5.tar.gz>`_ (version 0.4.5)
+- `bids-validator <https://github.com/bids-standard/bids-validator>`_ (version 1.8.0)
+- `connectome-workbench <https://www.humanconnectome.org/software/connectome-workbench>`_ (version 1.5.0)
 
 Not running on a local machine? - Data transfer
 ===============================================